Extract Keywords from sentence or Replace keywords in sentences.

Investigating Entity Knowledge in BERT with Simple Neural End-To-End Entity Linking

Conference on Computational Natural Language Learning

Replace or Retrieve Keywords In Documents at Scale

A Data-driven Approach for Noise Reduction in Distantly Supervised Biomedical Relation Extraction


Official pytorch implementation of the paper: "SinGAN: Learning a Generative Model from a Single Natural Image"

DeepLandscape: Adversarial Modeling of Landscape Video

A Generative Model for Texture Synthesis based on Optimal Transport Between Feature Distributions

Generative Adversarial Networks Can Create High Quality Artificial Prostate Cancer Magnetic Resonance Images

Ten Years of Generative Adversarial Nets (GANs): A survey of the state-of-the-art

One-shot Ultra-high-Resolution Generative Adversarial Network That Synthesizes 16K Images On A Single GPU


A global, black box optimization engine for real world metric optimization.

A Tutorial on Bayesian Optimization

AutoML: A survey of the state-of-the-art

Evolutionary Neural AutoML for Deep Learning

Implementing AutoML in Educational Data Mining for Prediction Tasks

A Stratified Analysis of Bayesian Optimization Methods

Pulmonary COVID-19: Learning Spatiotemporal Features Combining CNN and LSTM Networks for Lung Ultrasound Video Classification

HyperNOMAD: Hyperparameter optimization of deep neural networks using mesh adaptive direct search

Automatic Composition and Optimization of Multicomponent Predictive Systems With an Extended Auto-WEKA

IEEE transactions on automation science and engineering

Rocketsled: a software library for optimizing high-throughput computational searches

Auto-tuning TensorFlow Threading Model for CPU Backend


This repository contains several applications, demonstrating the Meltdown bug.

Meltdown

A framework for leaking secrets to past instructions

SoK: Hardware Defenses Against Speculative Execution Attacks

Management of Hardware Vulnerabilities in the Life Cycle Stages of Microprocessors and Computers

Attack detection based on machine learning algorithms for different
  variants of Spectre attacks and different Meltdown attack implementations


Multi-Zone Galactic Chemical Evolution Codes.  Extension of NuPyCEE

Validating Semi-analytic Models of High-redshift Galaxy Formation Using Radiation Hydrodynamical Simulations

Metallicity-dependent nucleosynthetic yields of Type Ia supernovae originating from double detonations of sub-M_Ch white dwarfs

Stochastic Chemical Evolution of Radioactive Isotopes with a Monte Carlo Approach

A New Model for Electron-capture Supernovae in Galactic Chemical Evolution

Enrichment of the Galactic disc with neutron-capture elements: Mo and Ru

Monthly notices of the Royal Astronomical Society

Galactic Chemical Evolution of Radioactive Isotopes with an s-process Contribution

Chemical Evolution of Fluorine in the Milky Way

Chromium Nucleosynthesis and Silicon–Carbon Shell Mergers in Massive Stars

Observational constraints on the origin of the elements. V. Non-LTE
  abundance ratios of [Ni/Fe] in Galactic stars and enrichment by
  sub-Chandrasekhar mass SNe


q2 Python package

The Solar Twin Planet Search

The temporal evolution of neutron-capture elements in the Galactic discs

Monthly Notices of the Royal Astronomical Society

Abundance to age ratios in the HARPS-GTO sample with Gaia DR2. Chemical clocks for a range of [Fe/H]

Nucleosynthetic history of elements in the Galactic disk - [X/Fe]–age relations from high-precision spectroscopy

THE DISSIMILAR CHEMICAL COMPOSITION OF THE PLANET-HOSTING STARS OF THE XO-2 BINARY SYSTEM

Planet signatures and effect of the chemical evolution of the Galactic thin-disk stars

The Gaia-ESO survey: the non-universality of the age-chemical-clocks-metallicity relations in the Galactic disc

THE CURIOUS CASE OF ELEMENTAL ABUNDANCE DIFFERENCES IN THE DUAL HOT JUPITER HOSTS WASP-94A AND B

Constraining cosmic scatter in the Galactic halo through a differential analysis of metal-poor stars

The Magellan PFS Planet Search Program: Radial Velocity and Stellar
  Abundance Analyses of the 360 AU, Metal-Poor Binary "Twins" HD 133131A & B


A JavaScript bilingual text realizer for web development

JSrealB: A Bilingual Text Realizer for Web Programming

The jsRealB Text Realizer: Organization and Use Cases -- Revised version


This repository contains a collection of surveys, datasets,  papers, and codes, for predictive uncertainty estimation in deep learning models.

Uncertainty in big data analytics: survey, opportunities, and challenges

A Survey on Uncertainty Estimation in Deep Learning Classification Systems from a Bayesian Perspective

Evidential fully convolutional network for semantic segmentation


RNA secondary structure/sequence profiles for homology search and alignment

Inferring microbiota functions from taxonomic genes: a review

VADR: validation and annotation of virus sequence submissions to GenBank

Genomic and Metabolomic Analyses of the Medicinal Fungus Inonotus hispidus for Its Metabolite’s Biosynthesis and Medicinal Application

From microbial community structure to metabolic inference using paprica

Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation

The First Whole Genome Sequencing of Agaricus bitorquis and Its Metabolite Profiling

Comparative Genomic Analysis and Metabolic Potential Profiling of a Novel Culinary-Medicinal Mushroom, Hericium rajendrae (Basidiomycota)


DDO a generic and efficient framework for MDD-based  optimization.

Discrete Optimization with Decision Diagrams

PRINCIPLES AND PRACTICE OF CONSTRAINT PROGRAMMING, CP 2015

Parallel Combinatorial Optimization with Decision Diagrams

Theoretical insights and algorithmic tools for decision diagram-based optimization

Improving the filtering of Branch-And-Bound MDD solver (extended)


Detect somatic variants from tumor and normal WGS/WXS data

Proteogenomic Characterization of Ovarian HGSC Implicates Mitotic Kinases, Replication Stress in Observed Chromosomal Instability

Proteomic Resistance Biomarkers for PI3K Inhibitor in Triple Negative Breast Cancer Patient-Derived Xenograft Models

Data from Single-Cell Discovery and Multiomic Characterization of Therapeutic Targets in Multiple Myeloma

Epigenetic regulation during cancer transitions across 11 tumour types


AfriSenti-SemEval Shared Task 12: Sentiment Analysis for African languages : https://afrisenti-semeval.github.io/

NaijaSenti: A Nigerian Twitter Sentiment Corpus for Multilingual
  Sentiment Analysis

AfriSenti: A Twitter Sentiment Analysis Benchmark for African Languages

SemEval-2023 Task 12: Sentiment Analysis for African Languages (AfriSenti-SemEval)

Team ISCL_WINTER at SemEval-2023 Task 12:AfriSenti-SemEval: Sentiment Analysis for Low-resource African Languages using Twitter Dataset

Proceedings of the The 17th International Workshop on Semantic Evaluation (SemEval-2023)

Masakhane-Afrisenti at SemEval-2023 Task 12: Sentiment Analysis using Afro-centric Language Models and Adapters for Low-resource African Languages


Official PyTorch implementation of LF-Font (Few-shot Font Generation with Localized Style Representations and Factorization) AAAI 2021

Few-shot Compositional Font Generation with Dual Memory

Multiple Heads are Better than One: Few-shot Font Generation with Multiple Localized Experts

Few-shot Font Generation with Weakly Supervised Localized
  Representations


Scripting analyses of genomes in Ensembl Plants

Scripting Analyses of Genomes in Ensembl Plants

K-mer counting and curated libraries drive efficient annotation of repeats in plant genomes

GET_PANGENES: calling pangenes from plant genome alignments confirms presence-absence variation


GET_HOMOLOGUES: a versatile software package for pan-genome analysis

Analysis of Plant Pan-Genomes and Transcriptomes with GET_HOMOLOGUES-EST, a Clustering Solution for Sequences of the Same Species

Pan‐genome: A promising resource for noncoding RNA discovery in plants

Analysis of Whole-Genome Sequences of Pathogenic Gram-Positive and Gram-Negative Isolates from the Same Hospital Environment to Investigate Common Evolutionary Trends Associated with Horizontal Gene Exchange, Mutations and DNA Methylation Patterning


Grove starter kit for TI LaunchPad(MSP430/CC3200 etc).

A Verified Architecture for Proofs of Execution on Remote Devices under
  Full Software Compromise

DIALED: Data Integrity Attestation for Low-end Embedded Devices

Tiny-CFA: A Minimalistic Approach for Control-Flow Attestation Using
  Verified Proofs of Execution

Privacy-from-Birth: Protecting Sensed Data from Malicious Sensors with VERSA


RTE+RRTMGP is a set of codes for computing radiative fluxes in planetary atmospheres. This fork uses neural networks for the gas optics computations and optimized code for the radiative transfer.

A Solar Irradiance Climate Data Record

Bulletin of the American Meteorological Society

Balancing accuracy, efficiency, and flexibility in radiation calculations for dynamical models

Journal of advances in modeling earth systems

Accelerating Radiation Computations for Dynamical Models With Targeted Machine Learning and Code Optimization

Exploring Pathways to More Accurate Machine Learning Emulation of Atmospheric Radiative Transfer

Improvement of the Simulation of Cloud Longwave Scattering in Broadband Radiative Transfer Models


Adaptive Universal Generalized PageRank Graph Neural Network

Is Homophily a Necessity for Graph Neural Networks?

BernNet: Learning Arbitrary Graph Spectral Filters via Bernstein Approximation

Handling Distribution Shifts on Graphs: An Invariance Perspective

Revisiting Heterophily For Graph Neural Networks

Is Heterophily A Real Nightmare For Graph Neural Networks To Do Node
  Classification?

Convolutional Neural Networks on Graphs with Chebyshev Approximation,
  Revisited

p-Laplacian Based Graph Neural Networks

Meta Propagation Networks for Graph Few-shot Semi-supervised Learning

EvenNet: Ignoring Odd-Hop Neighbors Improves Robustness of Graph Neural
  Networks


Genoppi: an open-source software for robust and standardized integration of proteomic and genetic data

Genoppi is an open-source software for robust and standardized integration of proteomic and genetic data

Protein interaction studies in human induced neurons indicate convergent biology underlying autism spectrum disorders


Scattering.m — a MATLAB toolbox for wavelet scattering

Wavelet Scattering on the Pitch Spiral

Sleep Arousal Detection From Polysomnography Using the Scattering Transform and Recurrent Neural Networks

Time-Frequency Scattering Accurately Models Auditory Similarities Between Instrumental Playing Techniques

Differentiable Time-Frequency Scattering on GPU

On Time-frequency Scattering and Computer Music

The Shape of RemiXXXes to Come: Audio Texture Synthesis with Time-frequency Scattering


Code to compute ionization field from density fields and source catalogue (CIFOG)

Astraeus I: the interplay between galaxy formation and reionization

The accuracy of semi-numerical reionization models in comparison with radiative transfer simulations

The 21 cm bispectrum during reionization: a tracer of the ionization topology

The escape fraction of ionizing photons during the Epoch of Reionization: observability with the Square Kilometre Array

A short introduction to reionization physics


Scripts to evaluate scoped meaning representations

Evaluating Scoped Meaning Representations

The First Shared Task on Discourse Representation Structure Parsing

Proceedings of the IWCS Shared Task on Semantic Parsing

Semantic Graph Parsing with Recurrent Neural Network DAG Grammars

Character-level Representations Improve DRS-based Semantic Parsing Even in the Age of BERT

SyGNS: A Systematic Generalization Testbed Based on Natural Language Semantics

DRS at MRP 2020: Dressing up Discourse Representation Structures as Graphs


Combining deep learning and reinforcement learning.

Proximal Policy Optimization Algorithms

Continuous control with deep reinforcement learning

Asynchronous Methods for Deep Reinforcement Learning

Trust Region Policy Optimization

Soft Actor-Critic Algorithms and Applications


Official repository for RawNet, RawNet2, and RawNet3

RawNet: Advanced end-to-end deep neural network using raw waveforms for text-independent speaker verification

Improved RawNet with Feature Map Scaling for Text-independent Speaker
  Verification using Raw Waveforms

Pushing the limits of raw waveform speaker recognition

CoMoSVC: Consistency Model-based Singing Voice Conversion

Learning Metrics from Mean Teacher: A Supervised Learning Method for
  Improving the Generalization of Speaker Verification System


BSE is a simple minimal simulation of a limit order book financial exchange

Deep Learning can Replicate Adaptive Traders in a Limit-Order-Book Financial Market

Adaptive-Aggressive Traders Don't Dominate

BSE: A Minimal Simulation of a Limit-Order-Book Stock Exchange

Which Trading Agent is Best? Using a Threaded Parallel Simulation of a Financial Market Changes the Pecking-Order

Methods Matter: A Trading Agent with No Intelligence Routinely Outperforms AI-Based Traders

Parameterised-Response Zero-Intelligence Traders

Exploring Narrative Economics: An Agent-Based-Modeling Platform that Integrates Automated Traders with Opinion Dynamics

BBE: Simulating the Microstructural Dynamics of an In-Play Betting Exchange via Agent-Based Modelling

A Cloud-Native Globally Distributed Financial Exchange Simulator for Studying Real-World Trading-Latency Issues at Planetary Scale

Exploring Coevolutionary Dynamics of Competitive Arms-Races Between Infinitely Diverse Heterogenous Adaptive Automated Trader-Agents


Tools for OPM processing using SPM

Optically pumped magnetometers: From quantum origins to multi-channel magnetoencephalography

Magnetic Field Mapping and Correction for Moving OP-MEG

Spherical harmonic based noise rejection and neuronal sampling with multi-axis OPMs

Modelling optically pumped magnetometer interference as a mean (magnetic) field


CryoGrid is a one-dimensional land surface model  dedicated to simulate ground temperatures in permafrost environments.

Consequences of permafrost degradation for Arctic infrastructure – bridging the model gap between regional and engineering scales


CodeBase for Paper: "Black-box Generation of Adversarial Text Sequences to Evade Deep Learning Classifiers", / Interactive Demo @

TextAttack: A Framework for Adversarial Attacks, Data Augmentation, and Adversarial Training in NLP

Towards a Robust Deep Neural Network in Texts: A Survey


R package to interact with TERN AusPlots data

The photosynthetic pathways of plant species surveyed in Australia’s national terrestrial monitoring network

Applying conservation reserve design strategies to define ecosystem monitoring priorities


This repository contains code and metadata of How2 dataset

How2: A Large-scale Dataset for Multimodal Language Understanding

A Benchmark for Structured Procedural Knowledge Extraction from Cooking Videos

Challenges with Sign Language Datasets for Sign Language Recognition and Translation

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION

On Leveraging the Visual Modality for Neural Machine Translation

Predicting Actions to Help Predict Translations

BASS: Block-wise Adaptation for Speech Summarization


The power of vertical geolocation of atmospheric profiles from GNSS radio occultation

Journal of geophysical research. Atmospheres : JGR

A modification to the standard ionospheric correction method used in GPS radio occultation

A Method to Deconvolve Errors in GPS RO-Derived Water Vapor Histograms

Journal of atmospheric and oceanic technology

Generalized canonical transform method for radio occultation sounding with improved retrieval in the presence of horizontal gradients


The myth, the legend, the model... ExoCAM!

Persistence of flare-driven atmospheric chemistry on rocky habitable zone worlds

The Atmospheric Circulation and Climate of Terrestrial Planets Orbiting Sun-like and M Dwarf Stars over a Broad Range of Planetary Parameters

TRAPPIST-1 Habitable Atmosphere Intercomparison (THAI): motivations and protocol version 1.0

Clouds will Likely Prevent the Detection of Water Vapor in JWST Transmission Spectra of Terrestrial Exoplanets

Dim Prospects for Transmission Spectra of Ocean Earths around M Stars

The First Habitable-zone Earth-sized Planet from TESS. III. Climate States and Characterization Prospects for TOI-700 d

The TRAPPIST-1 Habitable Atmosphere Intercomparison (THAI). I. Dry Cases—The Fellowship of the GCMs

The TRAPPIST-1 Habitable Atmosphere Intercomparison (THAI). III. Simulated Observables—the Return of the Spectrum

Water Ice Cloud Variability and Multi-epoch Transmission Spectra of TRAPPIST-1e

Mechanisms Leading to a Warmer Climate on High-obliquity Planets


Efficient implementations of state-of-the-art linear attention models in Pytorch and Triton

Linear Transformers Are Secretly Fast Weight Programmers

Retentive Network: A Successor to Transformer for Large Language Models

Gated Linear Attention Transformers with Hardware-Efficient Training


Nitric oxide acts as a cotransmitter in a subset of dopaminergic neurons to diversify memory dynamics

Neural Evolution of Context-Dependent Fly Song

A functionally ordered visual feature map in the Drosophila brain

Spatial readout of visual looming in the central brain of Drosophila

Synaptic targets of photoreceptors specialized to detect color and skylight polarization in Drosophila

Transsynaptic mapping of Drosophila mushroom body output neurons

Neuronal circuits integrating visual motion information in Drosophila melanogaster

Controlling motor neurons of every muscle for fly proboscis reaching

Hierarchical architecture of dopaminergic circuits enables second-order conditioning in Drosophila

Taste quality and hunger interactions in a feeding sensorimotor circuit


What are the differences between the transaction isolation levels in databases? This is a suite of test cases which differentiate isolation levels.

The LDBC Social Network Benchmark

Elle: Inferring Isolation Anomalies from Experimental Observations

Coo: Consistency Check for Transactional Databases


Neural parameter calibration for multi-agent models. Uses neural networks to estimate marginal densities on parameters and networks

Neural parameter calibration for large-scale multi-agent models

Inferring networks from time series: a neural approach


official implementation for the paper "Simplifying Graph Convolutional Networks"

Deep Learning on Graphs: A Survey

A Survey on Text Classification: From Shallow to Deep Learning

Graph-based Semi-supervised Learning: A Comprehensive Review

Scalable Graph Neural Networks via Bidirectional Propagation

Normalized Online Learning

Node Dependent Local Smoothing for Scalable Graph Learning

Meta Propagation Networks for Graph Few-shot Semi-supervised Learning

Multiplex Heterogeneous Graph Convolutional Network

Proceedings of the 28th ACM SIGKDD Conference on Knowledge Discovery and Data Mining

Approximate Graph Propagation


Chinese Language Generation Evaluation 中文生成任务基准测评

LCSTS: A Large Scale Chinese Short Text Summarization Dataset

CPT: A Pre-Trained Unbalanced Transformer for Both Chinese Language
  Understanding and Generation

TextBox 2.0: A Text Generation Library with Pre-trained Language Models


Deep Recurrent Survival Analysis, an auto-regressive deep model for time-to-event data analysis with censorship handling. An implementation of our AAAI 2019 paper and a benchmark for several (Python) implemented survival analysis methods.

Deep Recurrent Survival Analysis

Infer Your Enemies and Know Yourself, Learning in Real-Time Bidding with Partially Observable Opponents.

Learning Survival Distribution with Implicit Survival Function


Sparse Gaussian Process Potentials

Sparse Gaussian process potentials: Application to lithium diffusivity in superionic conducting solid electrolytes

A Sparse Bayesian Committee Machine Potential for Hydrocarbons


Firmware for Open EVSE


A multilingual parallel corpus created from translations of the Bible.

Survey of Low-Resource Machine Translation

Recipes for Adapting Pre-trained Monolingual and Multilingual Models to Machine Translation

ParsiNLU: A Suite of Language Understanding Challenges for Persian

Tools for The Production of Analogical Grids and a Resource of N-gram Analogical Grids in 11 Languages

PROCEEDINGS OF THE ELEVENTH INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION (LREC 2018)

Machine Translation between Spoken Languages and Signed Languages Represented in SignWriting

Named Entity Annotation Projection Applied to Classical Languages

Proceedings of the 7th Joint SIGHUM Workshop on Computational Linguistics for Cultural Heritage, Social Sciences, Humanities and Literature

The EDGeS Diachronic Bible Corpus

PROCEEDINGS OF THE 12TH INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION (LREC 2020)

SignBank+: Multilingual Sign Language Translation Dataset


NAS-Bench-101: Towards Reproducible Neural Architecture Search

Does Unsupervised Architecture Representation Learning Help Neural
  Architecture Search?

Tabular Benchmarks for Joint Architecture and Hyperparameter Optimization

Interpretable Neural Architecture Search via Bayesian Optimisation with Weisfeiler-Lehman Kernels

Optimal Transport Kernels for Sequential and Parallel Neural Architecture Search

Speedy Performance Estimation for Neural Architecture Search

Neural Architecture Search using Bayesian Optimisation with Weisfeiler-Lehman Kernel.

Near-linear Time Gaussian Process Optimization with Adaptive Batching and Resparsification

B2EA: An Evolutionary Algorithm Assisted by Two Bayesian Optimization
  Modules for Neural Architecture Search

Batch Bayesian optimisation via density-ratio estimation with guarantees


A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long erroneous 3GS sequencing reads and short accurate NGS sequencing reads.

DBG2OLC: Efficient Assembly of Large Genomes Using Long Erroneous Reads of the Third Generation Sequencing Technologies

A review of computational tools for generating metagenome-assembled genomes from metagenomic sequencing data

HASLR: Fast Hybrid Assembly of Long Reads

New High-Quality Draft Genome of the Brown Rot Fungal Pathogen Monilinia fructicola

Population Genomic Approaches for Weed Science

Hybrid Genome Assembly and Evidence-Based Annotation of the Egg Parasitoid and Biological Control AgentTrichogramma brassicae

Whole-genome sequencing reveals sex determination and liver high-fat storage mechanisms of yellowstripe goby (Mugilogobius chulae)

Comparative analysis of 84 chloroplast genomes of Tylosema esculentum reveals two distinct cytotypes


Phylogenetic Analysis of SARS-CoV-2 Data Is Difficult

Stability of SARS-CoV-2 phylogenies

Emergence of immune escape at dominant SARS-CoV-2 killer T cell epitope

SARS-CoV-2 outbreak in a tri-national urban area is dominated by a B.1 lineage variant linked to a mass gathering event

No detectable signal for ongoing genetic recombination in SARS-CoV-2

Accelerated evolution of SARS-CoV-2 in free-ranging white-tailed deer

A phylogeny-based metric for estimating changes in transmissibility from recurrent mutations in SARS-CoV-2

CoVizu: Rapid analysis and visualization of the global diversity of SARS-CoV-2 genomes

Regional importation and asymmetric within-country spread of SARS-CoV-2 variants of concern in the Netherlands

medRxiv : the preprint server for health sciences

SARS-CoV-2 phylogeny during the early outbreak in the Basel area, Switzerland: import and spread dominated by a single B.1 lineage variant (C15324T)


a Multi-aperture Image Reconstruction  Algorithm

MIRC-X: A Highly Sensitive Six-telescope Interferometric Imager at the CHARA Array

Principles of image reconstruction in optical interferometry: tutorial

Journal of the Optical Society of America. A, Optics, image science, and vision./Journal of the Optical Society of America. A, Online

Thermal imaging of dust hiding the black hole in the Active Galaxy NGC
  1068

The central parsec of NGC 3783: a rotating broad emission line region, asymmetric hot dust structure, and compact coronal line region

Multiple star systems in the Orion nebula

Why chromatic imaging matters


A flexible framework for anomaly detection in astronomy.

Astronomaly: Personalised active anomaly detection in astronomical data

Unsupervised machine learning for transient discovery in deeper, wider, faster light curves

A unique, ring-like radio source with quadrilateral structure detected with machine learning


Bayesian AGN Decomposition Analysis for SDSS Spectra

Bayesian AGN Decomposition Analysis for SDSS spectra: a correlation analysis of [O iii] lambda 5007 outflow kinematics with AGN and host galaxy properties

Galaxy pairs in the Sloan Digital Sky Survey – XV. Properties of ionized outflows

An increase in black hole activity in galaxies with kinematically misaligned gas

The US Naval Observatory VLBI Spectroscopic Catalog

The Astrophysical journal. Supplement series/Astrophysical journal. Supplement series

Narrow-line Seyfert 1 galaxies in Sloan Digital Sky Survey: a new optical spectroscopic catalogue

The Messy Nature of Fiber Spectra: Star-Quasar Pairs Masquerading as
  Dual Type 1 AGNs

VaDAR: Varstrometry for Dual AGN Using Radio Interferometry


16S taxonomy assignment using an ecosystem-specific database.

Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes

TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution

Microbial communities of the Laurentian Great Lakes reflect connectivity and local biogeochemistry

Cyanobacterial Community Composition and Bacteria–Bacteria Interactions Promote the Stable Occurrence of Particle-Associated Bacteria

Niche Separation Increases With Genetic Distance Among Bloom-Forming Cyanobacteria

Ananke: Temporal clustering reveals ecological dynamics of microbial communities


Deep neural models for core NLP tasks (Pytorch version)

Deep Biaffine Attention for Neural Dependency Parsing

A Unified Model for Opinion Target Extraction and Target Sentiment Prediction

Stack-Pointer Networks for Dependency Parsing

Curriculum-based transfer learning for an effective end-to-end spoken language understanding and domain portability

Hierarchical Pointer Net Parsing

Recent Advances in End-to-End Spoken Language Understanding

Statistical Language and Speech Processing

SC-LSTM: Learning Task-Specific Representations in Multi-Task Learning for Sequence Labeling

North American Chapter of the Association for Computational Linguistics

End-to-end named entity extraction from speech

How to Use Gazetteers for Entity Recognition with Neural Models

Absolute convergence and error thresholds in non-active adaptive sampling

Neural networks : the official journal of the International Neural Network Society


Lattice light-sheet post-processing utility.

The HOPS tethering complex is required to maintain signaling endosome identity and TORC1 activity

The journal of cell biology/The Journal of cell biology

A phosphoinositide and RAB switch controls early macropinocytosis

ER-dependent membrane repair of mycobacteria-induced vacuole damage


The ENIGMA Toolbox is an open-source repository for accessing 100+ ENIGMA statistical maps, visualizing cortical and subcortical surface data, and relating neuroimaging findings to micro- and macroscale brain organization.

Mapping neurotransmitter systems to the structural and functional organization of the human neocortex

The ENIGMA Toolbox: multiscale neural contextualization of multisite neuroimaging datasets

Topographic divergence of atypical cortical asymmetry and atrophy patterns in temporal lobe epilepsy

The ENIGMA Toolbox: Cross-disorder integration and multiscale neural contextualization of multisite neuroimaging datasets

Meta-connectomic analysis maps consistent, reproducible, and transcriptionally relevant functional connectome hubs in the human brain

Integrating neuroimaging and gene expression data using the imaging transcriptomics toolbox

Exploring Nonlinear Dynamics In Brain Functionality Through Phase Portraits And Fuzzy Recurrence Plots

bioRxiv : the preprint server for biology

Mapping Pharmacologically-induced Functional Reorganisation onto the Brain’s Neurotransmitter Landscape


DDSL: Deep Differential Simplex Layer for Neural Networks

Convolutional Neural Networks on non-uniform geometrical signals using Euclidean spectral transformation

Towards general-purpose representation learning of polygonal geometries

DDSL: Deep Differentiable Simplex Layer for Learning Geometric Signals


A suite of tools to explore protein structures with Protein Blocks :snake:

Protein flexibility in the light of structural alphabets

Extension of the classical classification of β-turns

PBxplore: a tool to analyze local protein structure and deformability with Protein Blocks

Global analysis of VHHs framework regions with a structural alphabet

Investigation of the impact of PTMs on the protein backbone conformation

Data set of intrinsically disordered proteins analysed at a local protein conformation level


Official implementation for NIPS'17 paper: PredRNN: Recurrent Neural Networks for Predictive Learning Using Spatiotemporal LSTMs.

PredRNN++: Towards A Resolution of the Deep-in-Time Dilemma in Spatiotemporal Predictive Learning

PredRNN: A Recurrent Neural Network for Spatiotemporal Predictive Learning

SlotFormer: Unsupervised Visual Dynamics Simulation with Object-Centric
  Models


Political Science Computational Laboratory

No evidence for negative impacts of acute sulfoxaflor exposure on bee olfactory conditioning or working memory

Gene Co-occurrence Networks Reflect Bacteriophage Ecology and Evolution

Alcohol use, cannabis use, and psychopathology symptoms among college students before and after COVID-19

Local attitudes toward Apennine brown bears: Insights for conservation issues

Weapon-carrying and the Reduction of Violent Harm

Beyond linear regression: A reference for analyzing common data types in discipline based education research

Physical review. Physics education research

Long-term woodland restoration on lowland farmland through passive rewilding

Thermal Summer Diurnal Hot-Spot Analysis: The Role of Local Urban Features Layers

An assessment of trends in the frequency and duration of Karenia brevis red tide blooms on the South Texas coast (western Gulf of Mexico)

Long-term research reveals multiple relationships between the abundance and impacts of a non-native species

Limnology and oceanography/The l & o on cd-rom


Pre-trained subword embeddings in 275 languages, based on Byte-Pair Encoding (BPE)

BPEmb: Tokenization-free Pre-trained Subword Embeddings in 275 Languages

LINSPECTOR: Multilingual Probing Tasks for Word Representations

A Systematic Study of Leveraging Subword Information for Learning Word Representations

Neural Machine Translation for Low-Resourced Indian Languages

When Specialization Helps: Using Pooled Contextualized Embeddings to
  Detect Chemical and Biomedical Entities in Spanish

AsPOS: Assamese Part of Speech Tagger using Deep Learning Approach

Improving the state-of-the-art in Thai semantic similarity using distributional semantics and ontological information

LaoPLM: Pre-trained Language Models for Lao

Deep Learning for the Russian Language

The Palgrave Handbook of Digital Russia Studies

基于多语言联合训练的汉-英-缅神经机器翻译方法(Chinese-English-Burmese Neural Machine Translation Method Based on Multilingual Joint Training)

China National Conference on Chinese Computational Linguistics


Fitting and analysis of trial-based neural spike responses with Generalized Linear Model (GLM).

Cerebellar Contribution to Preparatory Activity in Motor Neocortex

Disrupting cortico-cerebellar communication impairs dexterity

Highly structured, partner-sex- and subject-sex-dependent cortical responses during social facial touch

Dynamics of the Cortico-Cerebellar Loop Fine-Tune Dexterous Movement

Inferring neural information flow from spiking data

Computational and structural biotechnology journal


MSDNet

Multi-Scale Dense Networks for Resource Efficient Image Classification

Window-Based Early-Exit Cascades for Uncertainty Estimation: When Deep Ensembles are More Efficient than Single Models

A Closer Look at Branch Classifiers of Multi-exit Architectures

Inplace knowledge distillation with teacher assistant for improved training of flexible deep neural networks


Laia: A deep learning toolkit for HTR based on Torch

TrOCR: Transformer-based Optical Character Recognition with Pre-trained Models

Evaluating Sequence-to-Sequence Models for Handwritten Text Recognition

Character-based handwritten text transcription with attention networks

Rescoring Sequence-to-Sequence Models for Text Line Recognition with CTC-Prefixes

Measuring Human Perception to Improve Handwritten Document Transcription

A Probabilistic Framework for Lexicon-based Keyword Spotting in
  Handwritten Text Images

DTrOCR: Decoder-only Transformer for Optical Character Recognition

CNN-BiLSTM model for English Handwriting Recognition: Comprehensive Evaluation on the IAM Dataset


IP-Adapter: Text Compatible Image Prompt Adapter for Text-to-Image
  Diffusion Models

Scalable 3D Captioning with Pretrained Models

DALL-Eval: Probing the Reasoning Skills and Social Biases of
  Text-to-Image Generation Models

Visual Programming for Text-to-Image Generation and Evaluation

VideoDirectorGPT: Consistent Multi-scene Video Generation via LLM-Guided
  Planning

A Survey of Diffusion Based Image Generation Models: Issues and Their
  Solutions


Basic functions for power analysis in R

Field metabolic rates of teleost fishes are recorded in otolith carbonate

Compensatory Breeding in Years Following Drought in a Desert-Dwelling Cooperative Breeder

Out of the Loop, in Your Bubble: Mind Wandering Is Independent From Automation Reliability, but Influences Task Engagement

Iranian Brain Imaging Database: A Neuropsychiatric Database of Healthy Brain

Basic and clinical neuroscience/Iranian journal of neuroscience

Aphids Facing Their Parasitoids: A First Look at How Chemical Signals May Make Higher Densities of the Pea Aphid Acyrthosiphon pisum Less Attractive to the Parasitoid Aphidius ervi

Evaluating noninvasive methods for estimating cestode prevalence in a wild carnivore population

The Effects of Spinal Manipulation on Oculomotor Control in Children with Attention Deficit Hyperactivity Disorder: A Pilot and Feasibility Study

Differences in nutritional status between rural and urban Yucatec Maya children: The importance of early life conditions

American journal of physical anthropology

Chronic 3,4-Methylenedioxymethamphetamine (MDMA) Use Is Related to Glutamate and GABA Concentrations in the Striatum But Not the Anterior Cingulate Cortex

The international journal of neuropsychopharmacology

Effect of microporous polysaccharide hemospheres on anterolateral thigh free flap donor site complications


A Slicer extension to provide a GUI around pyradiomics

Development and Validation of an Efficient MRI Radiomics Signature for Improving the Predictive Performance of 1p/19q Co-Deletion in Lower-Grade Gliomas

A Machine Learning-Based Predictive Model of Epidermal Growth Factor Mutations in Lung Adenocarcinomas

Machine Learning Model Based on Optimized Radiomics Feature from 18F-FDG-PET/CT and Clinical Characteristics Predicts Prognosis of Multiple Myeloma: A Preliminary Study

Clinical and radiomics feature-based outcome analysis in lumbar disc herniation surgery


Updated version of a simple MCMC code for cosmological parameter estimation where only expansion history matters.

Model selection applied to reconstructions of the Dark Energy

Cosmological Reconstructions with Artificial Neural Networks

Neural network within a Bayesian inference framework

Coupled multiscalar field dark energy

Cosmological parameter estimation with Genetic Algorithms


Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology. (DEPRECATED)

Database resources of the National Center for Biotechnology Information

Evaluating Protein Transfer Learning with TAPE

Critical assessment of methods of protein structure prediction (CASP)—Round XII

Proteins: Structure, Function, and Bioinformatics


Fast exoplanet transmission spectrum calculator

petitRADTRANS. A Python radiative transfer package for exoplanet characterization and retrieval

Forward Modeling and Retrievals with PLATON, a Fast Open-source Tool

Publications of the Astronomical Society of the Pacific

PLATON II: New Capabilities and a Comprehensive Retrieval on HD 189733b Transit and Eclipse Data

A Hubble PanCET Study of HAT-P-11b: A Cloudy Neptune with a Low Atmospheric Metallicity

The Hubble Space Telescope PanCET Program: An Optical to Infrared Transmission Spectrum of HAT-P-32Ab

A broadband thermal emission spectrum of the ultra-hot Jupiter WASP-18b

The Hubble PanCET Program: A Metal-rich Atmosphere for the Inflated Hot Jupiter HAT-P-41b

Obliquity measurement and atmospheric characterisation of the WASP-74 planetary system

An enhanced slope in the transmission spectrum of the hot Jupiter WASP-104b

Monthly notices of the Royal Astronomical Society

ACCESS: Confirmation of No Potassium in the Atmosphere of WASP-31b


Simple heat and power model of Germany


Pipeline to generate NGS reads from a phylogeny

NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats.

Evaluation of SNP calling methods for closely related bacterial isolates and a novel high-accuracy pipeline: BactSNP

TreeToReads - a pipeline for simulating raw reads from phylogenies


Pytorch implementation of DCGAN, WGAN-CP, WGAN-GP

Unsupervised Representation Learning with Deep Convolutional Generative Adversarial Networks

Wasserstein GAN

Improved Training of Wasserstein GANs

A Note on the Inception Score

Enhancing Mechanical Metamodels With a Generative Model-Based Augmented Training Dataset

MaWGAN: A Generative Adversarial Network to Create Synthetic Data from Datasets with Missing Data

Ten Years of Generative Adversarial Nets (GANs): A survey of the state-of-the-art

TiAda: A Time-scale Adaptive Algorithm for Nonconvex Minimax
  Optimization


Query-Efficient Hard-label Black-box Attack:An Optimization-based Approach

Sign-OPT: A Query-Efficient Hard-label Adversarial Attack

Robustness for Non-Parametric Classification: A Generic Attack and Defense

Towards a Conceptual Framework for Requirements Interoperability in Complex Systems Engineering

On the Effectiveness of Small Input Noise for Defending Against Query-based Black-Box Attacks

Sparsity Meets Robustness: Channel Pruning for the Feynman-Kac Formalism Principled Robust Deep Neural Nets

Rethinking Image-Scaling Attacks: The Interplay Between Vulnerabilities in Machine Learning Systems

Evading Black-box Classifiers Without Breaking Eggs

Geometrically Adaptive Dictionary Attack on Face Recognition

Automated Decision-based Adversarial Attacks


AIXIjs - General Reinforcement Learning in the Browser

Count-Based Exploration in Feature Space for Reinforcement Learning

Universal Reinforcement Learning Algorithms: Survey and Experiments

AIXIjs: A Software Demo for General Reinforcement Learning


Entity disambiguation evaluation and error analysis tool

Improving broad-coverage medical entity linking with semantic type prediction and large-scale datasets

Fast and Effective Biomedical Entity Linking Using a Dual Encoder

Revisiting the Evaluation for Cross Document Event Coreference

International Conference on Computational Linguistics

Framing Named Entity Linking Error Types

PROCEEDINGS OF THE ELEVENTH INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION (LREC 2018)

Combining Open Source Annotators for Entity Linking through Weighted Voting

Joint Conference on Lexical and Computational Semantics

Stacking With Auxiliary Features

Visual Error Analysis for Entity Linking

PROCEEDINGS OF THE 53RD ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS AND THE 7TH INTERNATIONAL JOINT CONFERENCE ON NATURAL LANGUAGE PROCESSING (ACL-IJCNLP 2015): SYSTEM DEMONSTRATIONS

Supervised and Unsupervised Ensembling for Knowledge Base Population

Hedwig: A Named Entity Linker

PROCEEDINGS OF THE 12TH INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION (LREC 2020)


rapidtide - a suite of programs for doing time lag correlation analysis on fMRI data

Low Frequency Systemic Hemodynamic “Noise” in Resting State BOLD fMRI: Characteristics, Causes, Implications, Mitigation Strategies, and Applications

Correcting for Blood Arrival Time in Global Mean Regression Enhances Functional Connectivity Analysis of Resting State fMRI-BOLD Signals

Cerebral Motor Functional Connectivity at the Acute Stage: An Outcome Predictor of Ischemic Stroke

A novel approach for assessing hypoperfusion in stroke using spatial independent component analysis of resting-state fMRI


EndoSLAM Dataset and an Unsupervised Monocular Visual Odometry and Depth Estimation Approach for Endoscopic Videos: Endo-SfMLearner

EndoSLAM Dataset and An Unsupervised Monocular Visual Odometry and Depth Estimation Approach for Endoscopic Videos: Endo-SfMLearner

Self-Supervised Monocular Depth and Ego-Motion Estimation in Endoscopy:
  Appearance Flow to the Rescue

Quantitative Evaluation of Endoscopic SLAM Methods: EndoSLAM Dataset.


Protoplanetary Disk Modeling for Dynamical Mass Derivation

A Disk-based Dynamical Mass Estimate for the Young Binary AK Sco

The Degree of Alignment between Circumbinary Disks and Their Binary Hosts

A DISK-BASED DYNAMICAL CONSTRAINT ON THE MASS OF THE YOUNG BINARY DQ TAU

ALMA Measurements of Circumstellar Material in the GQ Lup System

ALMA Observations of the Young Substellar Binary System 2M1207

A Coplanar Circumbinary Protoplanetary Disk in the TWA 3 Triple M Dwarf System

Kinematic Structures in Planet-Forming Disks


Automated shot detection software

Human Action Localization with Sparse Spatial Supervision

StartNet: Online Detection of Action Start in Untrimmed Videos

A flexible model for training action localization with varying levels of supervision

Online Action Detection in Streaming Videos with Time Buffers


The PheWAS R package

Genetics of blood lipids among similar to 300,000 multi-ethnic participants of the Million Veteran Program

Trans-ethnic association study of blood pressure determinants in over 750,000 individuals

Mapping ICD-10 and ICD-10-CM Codes to Phecodes: Workflow Development and Initial Evaluation

Genome-wide meta-analysis of problematic alcohol use in 435,563 individuals yields insights into biology and relationships with other traits

Stroke genetics informs drug discovery and risk prediction across ancestries

Genomics and phenomics of body mass index reveals a complex disease network

Genome-wide association study identifies five risk loci for pernicious anemia

Evaluating statistical approaches to leverage large clinical datasets for uncovering therapeutic and adverse medication effects

GWAS meta-analyses clarify the genetics of cervical phenotypes and inform risk stratification for cervical cancer

Human molecular genetics online/Human molecular genetics

MR-PheWAS for the causal effects of serum magnesium on multiple disease outcomes in Caucasian descent


A PyTorch impl of EfficientDet faithful to the original Google impl w/ ported weights

EfficientDet: Scalable and Efficient Object Detection

High-Performance Large-Scale Image Recognition Without Normalization

Deep learning-based waste detection in natural and urban environments

An Efficient and Scalable Deep Learning Approach for Road Damage Detection

Conformal Prediction Sets with Limited False Positives

Tiled Squeeze-and-Excite: Channel Attention With Local Spatial Context

Repaint: Improving the Generalization of Down-Stream Visual Tasks by Generating Multiple Instances of Training Examples

A two-step machine learning approach for crop disease detection: an application of GAN and UAV technology.

Standardizing and Centralizing Datasets for Efficient Training of Agricultural Deep Learning Models

GAN-based generative modelling for dermatological applications --
  comparative study


Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs

Bifrost: highly parallel construction and indexing of colored and compacted de Bruijn graphs

Alignment- and reference-free phylogenomics with colored de Bruijn graphs

Succinct k-mer Sets Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform *

RGFA: powerful and convenient handling of assembly graphs


Inferring and Executing Programs for Visual Reasoning

Bayes-TrEx: a Bayesian Sampling Approach to Model Transparency by Example

Measuring CLEVRness: Blackbox testing of Visual Reasoning Models


Gaussian mixtures and image processing implemented in python

The Dark Energy Survey: Data Release 1

The Astrophysical journal. Supplement series/Astrophysical journal. Supplement series

Dark Energy Survey Year 1 Results: The Photometric Data Set for Cosmology

First Measurement of the Hubble Constant from a Dark Standard Siren using the Dark Energy Survey Galaxies and the LIGO/Virgo Binary-Black-hole Merger GW170814

Stellar Streams Discovered in the Dark Energy Survey

Practical Weak-lensing Shear Measurement with Metacalibration

Dark Energy Survey Year 1 Results: redshift distributions of the weak-lensing source galaxies

Monthly Notices of the Royal Astronomical Society

Dark Energy Survey year 1 results: Constraints on extended cosmological models from galaxy clustering and weak lensing

The DES Science Verification weak lensing shear catalogues

Dark Energy Survey Year 1 results: curved-sky weak lensing mass map

GREAT3 results - I. Systematic errors in shear estimation and the impact of real galaxy morphology


k-mer based assembly evaluation

Merqury: reference-free quality, completeness, and phasing assessment for genome assemblies

Semi-automated assembly of high-quality diploid human reference genomes

Complete vertebrate mitogenomes reveal widespread repeats and gene duplications

Comparative Analysis of Genotyping by Sequencing and Whole-Genome Sequencing Methods in Diversity Studies of Olea europaea L.

Chromosome-Scale, Haplotype-Resolved Genome Assembly of Non-Sex-Reversal Females of Swamp Eel Using High-Fidelity Long Reads and Hi-C Data

Evaluating long-read de novo assembly tools for eukaryotic genomes: insights and considerations


Next RecSys Library

RecBole: Towards a Unified, Comprehensive and Efficient Framework for Recommendation Algorithms

Adversarial and Contrastive Variational Autoencoder for Sequential Recommendation

RecBole 2.0: Towards a More Up-to-Date Recommendation Library

Linear, or Non-Linear, That is the Question!

Quality Metrics in Recommender Systems: Do We Calculate Metrics Consistently?

SSLRec: A Self-Supervised Learning Framework for Recommendation

COMET: Convolutional Dimension Interaction for Collaborative Filtering

Task Aligned Meta-learning based Augmented Graph for Cold-Start
  Recommendation


Neural model for converting Image-to-Markup (by Yuntian Deng yuntiandeng.com)

Image-to-Markup Generation with Coarse-to-Fine Attention

MathBERT: A Pre-Trained Model for Mathematical Formula Understanding

Automatic Generation of Headlines for Online Math Questions

MathAlign: Linking Formula Identifiers to their Contextual Natural Language Descriptions


Multiplexed Shotgun Genotyping

High-resolution mapping reveals hundreds of genetic incompatibilities in hybridizing fish species

A compartmentalized signaling network mediates crossover control in meiosis

A Major Locus Controls a Genital Shape Difference Involved in Reproductive Isolation Between Drosophila yakuba and Drosophila santomea

Hybrid dysgenesis in Drosophila virilis results in clusters of mitotic recombination and loss-of-heterozygosity but leaves meiotic recombination unaltered


Official implementation of the papers "GECToR – Grammatical Error Correction: Tag, Not Rewrite" (BEA-20) and "Text Simplification by Tagging" (BEA-21)

The CoNLL-2014 Shared Task on Grammatical Error Correction

Conference on Computational Natural Language Learning

GECToR -- Grammatical Error Correction: Tag, Not Rewrite

Text Simplification by Tagging

LM-Critic: Language Models for Unsupervised Grammatical Error Correction

BERT Enhanced Neural Machine Translation and Sequence Tagging Model for Chinese Grammatical Error Diagnosis

Zero-shot Commonsense Question Answering with Cloze Translation and
  Consistency Optimization

Ensembling and Knowledge Distilling of Large Sequence Taggers for Grammatical Error Correction

Frustratingly Easy System Combination for Grammatical Error Correction

Proceedings of the 2022 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies

Type-Driven Multi-Turn Corrections for Grammatical Error Correction

TemplateGEC: Improving Grammatical Error Correction with Detection Template

Proceedings of the 61st Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers)


Python implementation of the Rapid Automatic Keyword Extraction algorithm using NLTK.

Perspective-taking and Pragmatics for Generating Empathetic Responses Focused on Emotion Causes

Revamp: Enhancing Accessible Information Seeking Experience of Online Shopping for Blind or Low Vision Users

Proceedings of the 2021 CHI Conference on Human Factors in Computing Systems

Is artificial data useful for biomedical Natural Language Processing algorithms?

Neural Rule-Execution Tracking Machine For Transformer-Based Text Generation

ADAPT Centre Cone Team at IJCNLP-2017 Task 5: A Similarity-Based Logistic Regression Approach to Multi-choice Question Answering in an Examinations Shared Task

International Joint Conference on Natural Language Processing

Dataset Creation Framework for Personalized Type-Based Facet Ranking Tasks Evaluation


MIMIC-Extract:A Data Extraction, Preprocessing, and Representation Pipeline for MIMIC-III

MIMIC-Extract

Neural Natural Language Processing for unstructured data in electronic health records: A review

Democratizing EHR analyses with FIDDLE: a flexible data-driven preprocessing pipeline for structured clinical data

Journal of the American Medical Informatics Association : JAMIA

Healthsheet: Development of a Transparency Artifact for Health Datasets

Benchmarking Distribution Shift in Tabular Data with TableShift


DarkForest, the Facebook Go engine.

Deep Reinforcement Learning: An Overview

Better Computer Go Player with Neural Network and Long-term Prediction

Conditionally Elicitable Dynamic Risk Measures for Deep Reinforcement Learning

FML-based Prediction Agent and Its Application to Game of Go


The Dark Energy Survey: Data Release 1

The Dark Energy Survey Data Release 2

You can't always sketch what you want: Understanding Sensemaking in Visual Query Systems

IEEE transactions on visualization and computer graphics

easyaccess: Enhanced SQL command line interpreter for astronomical surveys

Astrometry and Occultation Predictions to Trans-Neptunian and Centaur Objects Observed within the Dark Energy Survey


Securify v2.0

Smart Contract Vulnerability Detection Technique: A Survey

Turn the Rudder: A Beacon of Reentrancy Detection for Smart Contracts on Ethereum

Gas Gauge: A Security Analysis Tool for Smart Contract Out-of-Gas
  Vulnerabilities

Definition and Detection of Defects in NFT Smart Contracts

TokenHook: Secure ERC-20 smart contract.

DAppSCAN: Building Large-Scale Datasets for Smart Contract Weaknesses in
  DApp Projects

Combatting Front-Running in Smart Contracts: Attack Mining, Benchmark Construction and Vulnerability Detector Evaluation

OpenSCV: An Open Hierarchical Taxonomy for Smart Contract
  Vulnerabilities

Empirical Review of Smart Contract and DeFi Security: Vulnerability
  Detection and Automated Repair


[CVPR2021, PAMI2023] End-to-End Object Detection with Learnable Proposal

Sparse R-CNN: End-to-End Object Detection with Learnable Proposals

DiffusionDet: Diffusion Model for Object Detection

PointTAD: Multi-Label Temporal Action Detection with Learnable Query
  Points

MOTRv3: Release-Fetch Supervision for End-to-End Multi-Object Tracking

Table Detection for Visually Rich Document Images


SUPPA: Fast quantification of splicing and differential splicing

The Functional Impact of Alternative Splicing in Cancer

SMRT sequencing of the full-length transcriptome of the Rhynchophorus ferrugineus (Coleoptera: Curculionidae)

Alternate splicing of transcripts upon Mycobacterium tuberculosis infection impacts the expression of functional protein domains

SMRT and Illumina RNA sequencing reveal novel insights into the heat stress response and crosstalk with leaf senescence in tall fescue

The landscape of expression and alternative splicing variation across human traits

Zenodo (CERN European Organization for Nuclear Research)

The PacBio Full-Length Transcriptome of the Tea Aphid as a Reference Resource

Dissection of full-length transcriptome and metabolome of Dichocarpum (Ranunculaceae): implications in evolution of specialized metabolism of Ranunculales medicinal plants

CHD8 suppression impacts on histone H3 lysine 36 trimethylation and alters RNA alternative splicing

Identification of genes involved in chicken follicle selection by ONT sequencing on granulosa cells

ASTool: An Easy-to-Use Tool to Accurately Identify Alternative Splicing Events from Plant RNA-Seq Data

International journal of molecular sciences


Alto, the Algebraic Language Toolkit

BME-UW at SRST-2019: Surface realization with Interpreted Regular Tree Grammars

Empirical Methods in Natural Language Processing

BME-TUW at SR’20: Lexical grammar induction for surface realization

IEEE Working Conference on Mining Software Repositories

Explainable lexical entailment with semantic graphs


PWC-Net: CNNs for Optical Flow Using Pyramid, Warping, and Cost Volume, CVPR 2018 (Oral)

Models Matter, So Does Training: An Empirical Study of CNNs for Optical Flow Estimation

Ego-Pose Estimation and Forecasting as Real-Time PD Control

A Fusion Approach for Multi-Frame Optical Flow Estimation

360 Optical Flow using Tangent Images

Scene Motion Decomposition for Learnable Visual Odometry

Training Deep SLAM on Single Frames


LSTM and QRNN Language Model Toolkit for PyTorch

Regularizing and Optimizing LSTM Language Models

AdaBelief Optimizer: Adapting Stepsizes by the Belief in Observed Gradients

Insights on representational similarity in neural networks with canonical correlation

Why gradient clipping accelerates training: A theoretical justification for adaptivity

Improving Neural Language Models with a Continuous Cache

Identifying and Reducing Gender Bias in Word-Level Language Models

Representation Degeneration Problem in Training Natural Language Generation Models

FRAGE: Frequency-Agnostic Word Representation

A Constructive Prediction of the Generalization Error Across Scales

Dynamic Evaluation of Neural Sequence Models


Oscar and VinVL

Oscar: Object-Semantics Aligned Pre-training for Vision-Language Tasks

VinVL: Revisiting Visual Representations in Vision-Language Models

GIT: A Generative Image-to-text Transformer for Vision and Language

Compressing Visual-linguistic Model via Knowledge Distillation

ITA: Image-Text Alignments for Multi-Modal Named Entity Recognition

MuMuQA: Multimedia Multi-Hop News Question Answering via Cross-Media Knowledge Extraction and Grounding

Foundation Models for Natural Language Processing -- Pre-trained
  Language Models Integrating Media

Concadia: Towards Image-Based Text Generation with a Purpose

Linking Emergent and Natural Languages via Corpus Transfer

A-CAP: Anticipation Captioning with Commonsense Knowledge


Code release for "Masked-attention Mask Transformer for Universal Image Segmentation"

Mask DINO: Towards A Unified Transformer-based Framework for Object Detection and Segmentation

Mask2Former for Video Instance Segmentation

A General-Purpose Self-Supervised Model for Computational Pathology

Expediting Large-Scale Vision Transformer for Dense Prediction without
  Fine-tuning

Unsupervised Multi-object Segmentation by Predicting Probable Motion
  Patterns

RankSeg: Adaptive Pixel Classification with Image Category Ranking for Segmentation

SAPA: Similarity-Aware Point Affiliation for Feature Upsampling

SIM: Semantic-aware Instance Mask Generation for Box-Supervised Instance Segmentation


Let us control diffusion models!

Adding Conditional Control to Text-to-Image Diffusion Models

Visual ChatGPT: Talking, Drawing and Editing with Visual Foundation
  Models

Text2Video-Zero: Text-to-Image Diffusion Models are Zero-Shot Video Generators

DiffFit: Unlocking Transferability of Large Diffusion Models via Simple Parameter-Efficient Fine-Tuning

Controlling Text-to-Image Diffusion by Orthogonal Finetuning

MaskSketch: Unpaired Structure-guided Masked Image Generation

Domain Expansion of Image Generators

ControlMat: A Controlled Generative Approach to Material Capture

AnyText: Multilingual Visual Text Generation And Editing

Faster Diffusion: Rethinking the Role of UNet Encoder in Diffusion
  Models


Application Kernel for Containers

The Serverless Computing Survey: A Technical Primer for Design Architecture

Rise of the Planet of Serverless Computing: A Systematic Review

FaaSLight: General Application-Level Cold-Start Latency Optimization for
  Function-as-a-Service in Serverless Computing

Service Based Virtual RAN Architecture for Next Generation Cellular Systems

Efficiency in the serverless cloud paradigm: A survey on the reusing and approximation aspects

A fresh look at the architecture and performance of contemporary isolation platforms

Proceedings of the 22nd International Middleware Conference

An Empirical Analysis of VM Startup Times in Public IaaS Clouds: An Extended Report


source code for google earth engine mapping routines

Mapping the world's coral reefs using a global multiscale earth observation framework

Remote sensing in ecology and conservation

Reef Cover, a coral reef classification for global habitat mapping from remote sensing

Reef Cover: a coral reef classification to guide global habitat mapping from remote sensing

Cloud Processing for Simultaneous Mapping of Seagrass Meadows in Optically Complex and Varied Water


StyloMetrix

DSHacker at SemEval-2023 Task 3: Genres and Persuasion Techniques Detection with Multilingual Data Augmentation through Machine Translation and Text Generation

Proceedings of the The 17th International Workshop on Semantic Evaluation (SemEval-2023)

The Grammar and Syntax Based Corpus Analysis Tool For The Ukrainian Language

StyloMetrix: An Open-Source Multilingual Tool for Representing
  Stylometric Vectors


An R package wrapping the US Energy Information Administration open data API.


The Stockholm inversion code

STiC: A multiatom non-LTE PRD inversion code for full-Stokes solar observations

The multi-thermal chromosphere

Inference of the chromospheric magnetic field configuration of solar plage using the CaII 8542 Å line

An observationally constrained model of strong magnetic reconnection in the solar chromosphere

Stratification of physical parameters in a C-class solar flare using multiline observations

ALMA observations of transient heating in a solar active region

Heating of the solar chromosphere through current dissipation

Physical properties of a fan-shaped jet backlit by an X9.3 flare

Solar surges related to UV bursts: Characterization through k-means, inversions and density diagnostics

IRIS^2+: A comprehensive database of stratified thermodynamic models
  in the low solar atmosphere


Baseline Recipe for VoicePrivacy Challenge 2024: anonymization systems and evaluation software

Speaker anonymisation using the McAdams coefficient

Anonymizing Speech: Evaluating and Designing Speaker Anonymization
  Techniques


A Repository for Single- and Multi-modal Speaker Verification, Speaker Recognition and Speaker Diarization

Pushing the Limits of Self-Supervised Speaker Verification using Regularized Distillation Framework

3D-Speaker: A Large-Scale Multi-Device, Multi-Distance, and
  Multi-Dialect Corpus for Speech Representation Disentanglement

An Enhanced Res2Net with Local and Global Feature Fusion for Speaker Verification


A new version of CLASS that can deal with axion-like particles. Co-developped with Tristan L. Smith, Tanvi Karwal + some initial commits by Charlotte Owen.

Resolving the Hubble tension with new early dark energy

The H_0 Olympics: A fair ranking of proposed models

Early dark energy is not excluded by current large-scale structure data

The Hubble tension in light of the Full-Shape analysis of Large-Scale Structure data

Journal of Cosmology and Astroparticle Physics

Early dark energy resolution to the Hubble tension in light of weak lensing surveys and lensing anomalies

Dark energy at early times and ACT data: A larger Hubble constant without late-time priors

The Ups and Downs of Early Dark Energy solutions to the Hubble tension: A review of models, hints and constraints circa 2023

Hints of Early Dark Energy in Planck, SPT, and ACT data: new physics or
  systematics?

Dark sector to restore cosmological concordance

Implication of the Hubble tension for the primordial Universe in light of recent cosmological data


Making Energy Systems Modeling as simple as a linear regression in R


A curated list of resources for machine learning for small-molecule drug discovery

Analyzing Learned Molecular Representations for Property Prediction

Low Data Drug Discovery with One-Shot Learning

GuacaMol: Benchmarking Models for De Novo Molecular Design

Journal of chemical information and modeling

Optimization of Molecules via Deep Reinforcement Learning

ZINC20-A Free Ultralarge-Scale Chemical Database for Ligand Discovery

PotentialNet for Molecular Property Prediction

Deep Docking: A Deep Learning Platform for Augmentation of Structure Based Drug Discovery

SCScore: Synthetic Complexity Learned from a Reaction Corpus

Transfer Learning for Drug Discovery

Applications of Deep Learning in Molecule Generation and Molecular Property Prediction


Automagically generate thumbnails, animated GIFs, and summaries from videos

To Click or Not To Click: Automatic Selection of Beautiful Thumbnails from Videos

Sentence Specified Dynamic Video Thumbnail Generation

PROCEEDINGS OF THE 27TH ACM INTERNATIONAL CONFERENCE ON MULTIMEDIA (MM'19)

A Multi-modal Deep Learning Model for Video Thumbnail Selection


scikit-learn cross validators for iterative stratification of multilabel data

Clotho: An Audio Captioning Dataset

Thou shalt not hate: Countering Online Hate Speech

Clotho-AQA: A Crowdsourced Dataset for Audio Question Answering

Privacy Policies Across the Ages: Content and Readability of Privacy
  Policies 1996--2021

Improving Portuguese Semantic Role Labeling with Transformers and Transfer Learning

Learning to Generalize towards Unseen Domains via a Content-Aware Style
  Invariant Model for Disease Detection from Chest X-rays


Revisiting the Arcade Learning Environment: Evaluation Protocols and Open Problems for General Agents

Deep Reinforcement Learning at the Edge of the Statistical Precipice

Open RL Benchmark: Comprehensive Tracked Experiments for Reinforcement
  Learning

A Simple Open-Loop Baseline for Reinforcement Learning Locomotion Tasks


A collection of command line tools for working with sequencing data

mGAP: the macaque genotype and phenotype resource, a framework for accessing and interpreting macaque variant data, and identifying new models of human disease

Rapid, accurate mapping of transgene integration in viable rhesus macaque embryos using enhanced-specificity tagmentation-assisted PCR

Molecular therapy. Methods & clinical development

VariantQC: a visual quality control report for variant evaluation

A Multifunctional and Highly Adaptable Reporter System for CRISPR/Cas Editing


We expose this user-friendly algorithm library (with an integrated evaluation platform) for beginners who intend to start federated learning (FL) study

Convolutional Neural Networks for Sentence Classification

Communication-Efficient Learning of Deep Networks from Decentralized Data

Bag of Tricks for Efficient Text Classification

SCAFFOLD: Stochastic Controlled Averaging for Federated Learning

Federated Multi-Task Learning

Personalized Federated Learning: A Meta-Learning Approach

Model-Contrastive Federated Learning

Ditto: Fair and Robust Federated Learning Through Personalization

FedBN: Federated Learning on Non-IID Features via Local Batch
  Normalization

Federated Learning with Personalization Layers


Code and Python library to process Robotic Total Stations data

Uncertainty Analysis for Accurate Ground Truth Trajectories with Robotic Total Stations


Creative Commons Attribution Share Alike 4.0 International

The Schema-Guided Dialogue Dataset

Towards Scalable Multi-domain Conversational Agents: The Schema-Guided Dialogue Dataset

The Eighth Dialog System Technology Challenge

Schema-Guided Dialogue State Tracking Task at DSTC8

SGD-X: A Benchmark for Robust Generalization in Schema-Guided Dialogue Systems

User Simulation for Evaluating Information Access Systems


A set of high-dimensional continuous control environments for use with Unity ML-Agents Toolkit.

Emergence of Locomotion Behaviours in Rich Environments

DeepMimic: Example-Guided Deep Reinforcement Learning of Physics-Based Character Skills

Marathon Environments: Multi-Agent Continuous Control Benchmarks in a
  Modern Video Game Engine

Realistic Physics Based Character Controller


Estimating PV array location and orientation from real-world power datasets.


The Wren sits on its Roost in the Aviary.

Crystal Graph Convolutional Neural Networks for an Accurate and Interpretable Prediction of Material Properties.

Predicting materials properties without crystal structure: deep representation learning from stoichiometry

Rapid Discovery of Stable Materials by Coordinate-free Coarse Graining


Python implementations of approval-based committee (multi-winner) voting rules

Properties of Multiwinner Voting Rules

The (Computational) Social Choice Take on Indivisible Participatory
  Budgeting

Utilitarian welfare and representation guarantees of approval-based multiwinner rules

An Analysis of Approval-Based Committee Rules for 2D-Euclidean Elections

THIRTY-FIFTH AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE, THIRTY-THIRD CONFERENCE ON INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE AND THE ELEVENTH SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE

Welfare vs. Representation in Participatory Budgeting

How to Sample Approval Elections?

Deliberation and Voting in Approval-Based Multi-Winner Elections


A robust and fast clustering method for amplicon-based studies

Swarm v3: towards tera-scale amplicon clustering

Plant genetic effects on microbial hubs impact host fitness in repeated field trials

Proceedings of the National Academy of Sciences of the United States of America

Machine learning for metagenomics: methods and tools

International Consortium to Advance Cross‐Species Extrapolation of the Effects of Chemicals in Regulatory Toxicology

Revealing environmentally driven population dynamics of an Arctic diatom using a novel microsatellite PoolSeq barcoding approach

Bacterial taxa predictive of hyperpigmented skins

Intragenomic diversity of the V9 hypervariable domain in eukaryotes has little effect on metabarcoding

Applications of Machine Learning Models to Predict and Prevent Obesity: A Mini-Review


Towards Gene Expression Convolutions using Gene Interaction Graphs

Deep Learning on Graphs: A Survey

Is graph-based feature selection of genes better than random?


Speech enhancement system for the CHiME-5 dinner party scenario

Guided Source Separation Meets a Strong ASR Backend: Hitachi/Paderborn University Joint Investigation for Dinner Party ASR

An Investigation into the Effectiveness of Enhancement in ASR Training and Test for CHiME-5 Dinner Party Transcription

GPU-accelerated Guided Source Separation for Meeting Transcription


Graph Network Simulator

Learning to Simulate Complex Physics with Graph Networks

Learning Mesh-Based Simulation with Graph Networks

GNS: A generalizable Graph Neural Network-based simulator for particulate and fluid modeling

Graph Neural Network-based surrogate model for granular flows


R Client Library for Web Land Trajectory Service


Overview of the HECKTOR Challenge at MICCAI 2021: Automatic Head and Neck Tumor Segmentation and Outcome Prediction in PET/CT Images

Head and Neck Cancer Primary Tumor Auto Segmentation using Model Ensembling of Deep Learning in PET-CT Images

Progression Free Survival Prediction for Head and Neck Cancer using Deep Learning based on Clinical and PET-CT Imaging Data

MLC at HECKTOR 2022: The Effect and Importance of Training Data when
  Analyzing Cases of Head and Neck Tumors using Machine Learning


"Good Robot! Now Watch This!": Repurposing Reinforcement Learning for Task-to-Task Transfer; and “Good Robot!”: Efficient Reinforcement Learning for Multi-Step Visual Tasks with Sim to Real Transfer

Learning Synergies between Pushing and Grasping with Self-supervised Deep Reinforcement Learning

International Conference on Robotics and Automation

Guiding Multi-Step Rearrangement Tasks with Natural Language Instructions


Simple tools to work with the Initial Mass Function

S^5: Probing the Milky Way and Magellanic Clouds potentials with the
  6-D map of the Orphan-Chenab stream

Population synthesis of accreting white dwarfs: rates and evolutionary pathways of H and He novae

Monthly Notices of the Royal Astronomical Society

The Radcliffe wave as the gas spine of the Orion arm

Faint Stars in a Faint Galaxy. II. The Low-mass Stellar Initial Mass Function of the Boötes I Ultrafaint Dwarf Spheroidal Galaxy

Demographics of Protoplanetary Disks: A Simulated Population of Edge-on Systems


LogMap: An Ontology Alignment and Alignment Repair System

Logic-based assessment of the compatibility of UMLS ontology sources

MELT - Matching EvaLuation Toolkit

Matching disease and phenotype ontologies in the ontology alignment evaluation initiative

Ontology mapping for semantically enabled applications

Dividing the Ontology Alignment Task with Semantic Embeddings and Logic-based Modules

Machine Learning-Friendly Biomedical Datasets for Equivalence and Subsumption Ontology Matching

Breaking-down the Ontology Alignment Task with a Lexical Index and Neural Embeddings.

Prediction of adverse biological effects of chemicals using knowledge graph embeddings

Exploring Wasserstein Distance across Concept Embeddings for Ontology
  Matching


SPM tools to get the best of mass univariate analyses

Simultaneous EEG-fMRI during a neurofeedback task, a brain imaging dataset for multimodal data integration

Recommendations of Choice of Head Coil and Prescan Normalize Filter Depend on Region of Interest and Task

Pros and Cons of Using the Informed Basis Set to Account for Hemodynamic Response Variability with Developmental Data

Validation of a New Coil Array Tailored for Dog Functional Magnetic Resonance Imaging Studies

Sailing in rough waters: Examining volatility of fMRI noise


A repository for explaining feature attributions and feature interactions in deep neural networks.

DistilBERT, a distilled version of BERT: smaller, faster, cheaper and lighter

Axiomatic Attribution for Deep Networks

Improving performance of deep learning models with axiomatic attribution priors and expected gradients

Explaining Explanations: Axiomatic Feature Interactions for Deep Networks


snipit: summarise snps relative to your reference sequence

Phylogenomic characterization and signs of microevolution in the 2022 multi-country outbreak of monkeypox virus

Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic

Virological characteristics of the SARS-CoV-2 XBB variant derived from recombination of two Omicron subvariants

Pandemic-scale phylogenomics reveals the SARS-CoV-2 recombination landscape

Accelerated SARS-CoV-2 intrahost evolution leading to distinct genotypes during chronic infection

medRxiv : the preprint server for health sciences

Emergence and widespread circulation of a recombinant SARS-CoV-2 lineage in North America

Viral Kinetics of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Omicron Infection in mRNA-Vaccinated Individuals Treated and Not Treated with Nirmatrelvir-Ritonavir

Global distribution of mcr gene variants in 214,095 metagenomic samples

Comparative Analysis of Emerging B.1.1.7+E484K SARS-CoV-2 Isolates

Genomics-informed outbreak investigations of SARS-CoV-2 using civet


XPIR: Private Information Retrieval for Everyone

Location Privacy in Cognitive Radios With Multi-Server Private Information Retrieval

IEEE transactions on cognitive communications and networking/IEEE Transactions on Cognitive Communications and Networking

When the hammer meets the nail: Multi-server PIR for database-driven CRN with location privacy assurance

IEEE Conference on Communications and Network Security

From Task Tuning to Task Assignment in Privacy-Preserving Crowdsourcing Platforms


BayesOpt: A toolbox for bayesian optimization, experimental design and stochastic bandits.

AutoML: A survey of the state-of-the-art

BayesOpt: A Bayesian Optimization Library for Nonlinear Optimization, Experimental Design and Bandits

Predicting clinical outcomes from large scale cancer genomic profiles with deep survival models

The Technological Emergence of AutoML: A Survey of Performant Software and Applications in the Context of Industry


MAGMA - a GPT-style multimodal model that can understand any combination of images and language. NOTE: The freely available model from this repo is only a demo. For the latest multimodal and multilingual models from Aleph Alpha check out our website https://app.aleph-alpha.com

MAGMA -- Multimodal Augmentation of Generative Models through
  Adapter-based Finetuning

AtMan: Understanding Transformer Predictions Through Memory Efficient
  Attention Manipulation

ImageNetVC: Zero- and Few-Shot Visual Commonsense Evaluation on 1000 ImageNet Categories

Aligning MAGMA by Few-Shot Learning and Finetuning


Forward-time simulation in Python using fwdpp

Genetic architecture and selective sweeps after polygenic adaptation to distant trait optima

The Temporal Dynamics of Background Selection in Nonequilibrium Populations

Comparative evolutionary analysis and prediction of deleterious mutation patterns between sorghum and maize


A script that creates train, valid and test datasets for the ranking task from Ubuntu corpus dialogs.

Modeling Topical Relevance for Multi-Turn Dialogue Generation

Measuring Semantic Coherence of a Conversation

Conditional Text Generation for Harmonious Human-Machine Interaction

Enhance word representation for out-of-vocabulary on Ubuntu dialogue corpus

Knowledge-based Conversational Search

A Comprehensive Survey of Natural Language Generation Advances from the
  Perspective of Digital Deception


Creative Commons Attribution 4.0 International

Research Code for  Multimodal-Cognition Team in Ant Group

Pink: Unveiling the Power of Referential Comprehension for Multi-modal
  LLMs

Dual-Modal Attention-Enhanced Text-Video Retrieval with Triplet Partial Margin Contrastive Learning

Proceedings of the 31st ACM International Conference on Multimedia

EVE: Efficient zero-shot text-based Video Editing with Depth Map
  Guidance and Temporal Consistency Constraints

M2-Encoder: Advancing Bilingual Image-Text Understanding by Large-scale Efficient Pretraining

SNP-S3: Shared Network Pre-training and Significant Semantic Strengthening for Various Video-Text Tasks

IEEE transactions on circuits and systems for video technology


Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls

An open resource for accurately benchmarking small variant and reference calls

A reference human genome dataset of the BGISEQ-500 sequencer

Benchmarking challenging small variants with linked and long reads

Synthetic microbe communities provide internal reference standards for metagenome sequencing and analysis

Best practices for the analytical validation of clinical whole-genome sequencing intended for the diagnosis of germline disease

Reproducible integration of multiple sequencing datasets to form high-confidence SNP, indel, and reference calls for five human genome reference materials

Best Practices for Benchmarking Germline Small Variant Calls in Human Genomes

Tools for annotation and comparison of structural variation


AdapterRemoval v2 - rapid adapter trimming, identification, and read merging

AdapterRemoval v2: rapid adapter trimming, identification, and read merging

Reconstructing the Deep Population History of Central and South America

Interspecific Gene Flow Shaped the Evolution of the Genus Canis

Direct Antiviral Treatments for Hepatitis C Virus Have Off-Target Effects of Oncologic Relevance in Hepatocellular Carcinoma

Insights into the Host-Pathogen Interaction Pathways through RNA-Seq Analysis of Lens culinaris Medik. in Response to Rhizoctonia bataticola Infection

Mapache: a flexible pipeline to map ancient DNA

Identification of an Actionable Mutation of KIT in a Case of Extraskeletal Myxoid Chondrosarcoma

International journal of molecular sciences

Genome-wide identification, characterization, and functional analysis of lncRNAs in Hevea brasiliensis

Mechanisms of resistance to a PI3K inhibitor in gastrointestinal stromal tumors: an omic approach to identify novel druggable targets

DOAJ (DOAJ: Directory of Open Access Journals)

Rickettsia felis DNA recovered from a child who lived in southern Africa 2000 years ago


Overview of the data QC, code, and GWAS summary output from the 2017 UK Biobank data release

A generalized linear mixed model association tool for biobank-scale data

Zenodo (CERN European Organization for Nuclear Research)

Neuropsychiatric Genetics of African Populations-Psychosis (NeuroGAP-Psychosis): a case-control study protocol and GWAS in Ethiopia, Kenya, South Africa and Uganda

Insights from complex trait fine-mapping across diverse populations

Genomic Risk Factors for Cervical Cancer

Variability in Brain Structure and Function Reflects Lack of Peer Support

Causal Association Between Tea Consumption and Kidney Function: A Mendelian Randomization Study

Recent shifts in the genomic ancestry of Mexican Americans may alter the genetic architecture of biomedical traits

Reproduction and longevity: A Mendelian randomization study of gonadotropin-releasing hormone and ischemic heart disease

Serum calcium and 25-hydroxyvitamin D in relation to longevity, cardiovascular disease and cancer: a Mendelian randomization study

Pleiotropy Complicates Human Gene Editing: CCR5Δ32 and Beyond


A high-level, easy-to-deploy non-uniform Fast Fourier Transform in PyTorch.

B-Spline Parameterized Joint Optimization of Reconstruction and K-Space Trajectories (BJORK) for Accelerated 2D MRI

An End-To-End-Trainable Iterative Network Architecture for Accelerated Radial Multi-Coil 2D Cine MR Image Reconstruction

Medical physics on CD-ROM/Medical physics

Data Consistent Deep Rigid MRI Motion Correction

Efficient Approximation of Jacobian Matrices Involving a Non-Uniform Fast Fourier Transform (NUFFT)

Retrospective Motion Correction in Gradient Echo MRI by Explicit Motion
  Estimation Using Deep CNNs


Avalanche fork adding RL support

Avalanche: an End-to-End Library for Continual Learning

Avalanche RL: a Continual Reinforcement Learning Library


Create Ecological Niche Models with TheMetaLand

Climate change and bird extinctions in the Amazon

Multi-temporal ecological niche modeling for bird conservation in the face of climate change scenarios in Caatinga, Brazil

Synergistic effects of climate and landscape change on the conservation of Amazonian lizards


LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.

Assessing genome assembly quality using the LTR Assembly Index (LAI)

A high-quality reference genome of wild Cannabis sativa

European maize genomes highlight intraspecies variation in repeat and gene content

TEsorter: An accurate and fast method to classify LTR-retrotransposons in plant genomes

The spinach YY genome reveals sex chromosome evolution, domestication, and introgression history of the species

The Jasmine (Jasminum sambac) Genome Provides Insight into the Biosynthesis of Flower Fragrances and Jasmonates

基因组蛋白质组与生物信息学报

A High-Quality Haplotype-Resolved Genome of Common Bermudagrass (Cynodon dactylon L.) Provides Insights Into Polyploid Genome Stability and Prostrate Growth

The structure of the tetraploid sour cherry ‘Schattenmorelle’ (Prunus cerasus L.) genome reveals insights into its segmental allopolyploid nature

Decoupling subgenomes within hybrid lavandin provide new insights into speciation and monoterpenoid diversification of Lavandula

Comparative Genomic Analysis and Metabolic Potential Profiling of a Novel Culinary-Medicinal Mushroom, Hericium rajendrae (Basidiomycota)


Precision Radio Interferometry Simulator (for radio astronomy applications)

Hydrogen Epoch of Reionization Array (HERA)

A Simplified, Lossless Reanalysis of PAPER-64

EFFECTS OF ANTENNA BEAM CHROMATICITY ON REDSHIFTED 21 cm POWER SPECTRUM AND IMPLICATIONS FOR HYDROGEN EPOCH OF REIONIZATION ARRAY

THE HYDROGEN EPOCH OF REIONIZATION ARRAY DISH. I. BEAM PATTERN MEASUREMENTS AND SCIENCE IMPLICATIONS

THE HYDROGEN EPOCH OF REIONIZATION ARRAY DISH. II. CHARACTERIZATION OF SPECTRAL STRUCTURE WITH ELECTROMAGNETIC SIMULATIONS AND ITS SCIENCE IMPLICATIONS

A unified calibration framework for 21 cm cosmology

Monthly notices of the Royal Astronomical Society

Detection of cosmic structures using the bispectrum phase. II. First results from application to cosmic reionization using the Hydrogen Epoch of Reionization Array

Imaging and Modeling Data from the Hydrogen Epoch of Reionization Array

The Astrophysical journal. Supplement series/Astrophysical journal. Supplement series

Detection of cosmic structures using the bispectrum phase. I. Mathematical foundations

Statistical Detection of IGM Structures during Cosmic Reionization Using Absorption of the Redshifted 21 cm line by H i against Compact Background Radio Sources


Searching the best regression model using R (correlation filter, data scaling, best regression model, etc.)

RRegrs: an R package for computer-aided model selection with multiple regression models

Carbon Nanotubes’ Effect on Mitochondrial Oxygen Flux Dynamics: Polarography Experimental Study and Machine Learning Models using Star Graph Trace Invariants of Raman Spectra

Using the RRegrs R package for automating predictive modelling

Proceedings of MOL2NET, International Conference on Multidisciplinary Sciences


An open-source toolkit for textual backdoor attack and defense (NeurIPS 2022 D&B, Spotlight)

A Unified Evaluation of Textual Backdoor Learning: Frameworks and
  Benchmarks

ASSET: Robust Backdoor Data Detection Across a Multiplicity of Deep
  Learning Paradigms

Setting the Trap: Capturing and Defeating Backdoors in Pretrained
  Language Models through Honeypots

Large Language Models Are Better Adversaries: Exploring Generative Clean-Label Backdoor Attacks Against Text Classifiers


Controlled Vocabularies (CVs) for use in CMIP6

Presentation and Evaluation of the IPSL‐CM6A‐LR Climate Model

Journal of advances in modeling earth systems

Requirements for a global data infrastructure in support of CMIP6

Sensitivity of deep ocean biases to horizontal resolution in prototype CMIP6 simulations with AWI-CM1.0

The CMIP6 Data Request (DREQ, version 01.00.31)

The CMIP6 Data Request (version 01.00.31)

Historical global ocean wave data simulated with CMIP6 anthropogenic and natural forcings

A Barotropic Solver for High-Resolution Ocean General Circulation Models

Journal of marine science and engineering


A CVXPY extension for convex-concave programming

Learning Fair Rule Lists

Optimization Method for Wide Beam Sonar Transmit Beamforming

Stochastic Neural Networks for Automatic Cell Tracking in Microscopy Image Sequences of Bacterial Colonies

A Note on the Hausdorff Distance Between Norm Balls and Their Linear Maps


Security and Privacy Risk Simulator for Machine Learning (arXiv:2312.17667)

Deep Learning with Differential Privacy

Conference on Computer and Communications Security

Membership Inference Attacks against Machine Learning Models

Federated Optimization in Heterogeneous Networks

Model Inversion Attacks that Exploit Confidence Information and Basic Countermeasures

Evasion Attacks against Machine Learning at Test Time

Poisoning Attacks against Support Vector Machines

Certified Robustness to Adversarial Examples with Differential Privacy

Inverting Gradients - How easy is it to break privacy in federated learning?

Model-Contrastive Federated Learning

FedMD: Heterogenous Federated Learning via Model Distillation


Deep Learning for Time Series Classification

Deep learning for time series classification: a review

Unsupervised Scalable Representation Learning for Multivariate Time Series

Interpretable Time Series Classification using Linear Models and
  Multi-resolution Multi-domain Symbolic Representations

Time Series Extrinsic Regression

Can We Ditch Feature Engineering? End-to-End Deep Learning for Affect Recognition from Physiological Sensor Data

Monash University, UEA, UCR Time Series Extrinsic Regression Archive

Automatic Classification of Plasma Regions in Near-Earth Space with Supervised Machine Learning: Application to Magnetospheric Multi Scale 2016-2019 Observations

Frontiers in astronomy and space sciences

Detection of Unilateral Arm Paresis after Stroke by Wearable Accelerometers and Machine Learning

NITROGEN CONCENTRATIONS AND ISOTOPIC COMPOSITIONS OF ALTERED TERRESTRIAL GLASSY BASALTIC ROCKS, AND IMPLICATIONS FOR ASTROBIOLOGY


baltic - backronymed adaptable lightweight tree import code for molecular phylogeny manipulation, analysis and visualisation. Development is back on the evogytis/baltic branch (i.e. here).

Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity

COVID-19 in health-care workers in three hospitals in the south of the Netherlands: a cross-sectional study

Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020

Emergence in late 2020 of multiple lineages of SARS-CoV-2 Spike protein variants affecting amino acid position 677

Early introductions and transmission of SARS-CoV-2 variant B.1.1.7 in the United States

Genomic epidemiology identifies emergence and rapid transmission of SARS-CoV-2 B.1.1.7 in the United States

Single mosquito metatranscriptomics identifies vectors, emerging pathogens and reservoirs in one assay

Ebola Virus Transmission Initiated by Relapse of Systemic Ebola Virus Disease

A Bayesian approach to infer recombination patterns in coronaviruses

bioRxiv : the preprint server for biology

SARS-CoV-2 genomes from Saudi Arabia implicate nucleocapsid mutations in host response and increased viral load


An extension to OpenRefine that enables graphical mapping of OpenRefine project data to an RDF skeleton and then exporting it in RDF format

Making FAIR Easy with FAIR Tools: From Creolization to Convergence

A catalogue of 863 Rett-syndrome-causing MECP2 mutations and lessons learned from data integration

Adapting Data-Driven Research to the Fields of Social Sciences and the Humanities

10 Years Later: The Mathematics Subject Classification and Linked Open Data

Interactively Constructing Knowledge Graphs from Messy User-Generated
  Spreadsheets


Python client utilties for interacting with the neuPrint connectome analysis service

Information flow, cell types and stereotypy in a full olfactory connectome

Context-dependent representations of movement in Drosophila dopaminergic reinforcement pathways

Localized inhibition in the Drosophila mushroom body

Connectomic analysis of the Drosophila lateral neuron clock cells reveals the synaptic basis of functional pacemaker classes

The anterior paired lateral neuron normalizes odour-evoked activity at the mushroom body calyx

Nested neural circuits generate distinct acoustic signals during Drosophila courtship

Interactions between specialized gain control mechanisms in olfactory processing


A modular PyTorch library for vision transformer models

An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale

Swin Transformer: Hierarchical Vision Transformer using Shifted Windows

Pyramid Vision Transformer: A Versatile Backbone for Dense Prediction without Convolutions

CvT: Introducing Convolutions to Vision Transformers

ViViT: A Video Vision Transformer

Vision Transformers for Dense Prediction

CrossViT: Cross-Attention Multi-Scale Vision Transformer for Image Classification

ConViT: Improving Vision Transformers with Soft Convolutional Inductive Biases

Perceiver IO: A General Architecture for Structured Inputs & Outputs

Visformer: The Vision-friendly Transformer


A collection of datasets for the purpose of emotion recognition/detection in speech.

The Ryerson Audio-Visual Database of Emotional Speech and Song (RAVDESS): A dynamic, multimodal set of facial and vocal expressions in North American English

ShEMO: a large-scale validated database for Persian speech emotion detection

DEMoS: an Italian emotional speech corpus

Towards a standard set of acoustic features for the processing of emotion in speech.

The Perceived Emotion of Isolated Synthetic Audio: The EmoSynth Dataset and Results


The MaNGA Data Analysis Pipeline

The Seventeenth Data Release of the Sloan Digital Sky Surveys: Complete Release of MaNGA, MaStar, and APOGEE-2 Data

The Data Analysis Pipeline for the SDSS-IV MaNGA IFU Galaxy Survey: Overview

The Data Analysis Pipeline for the SDSS-IV MaNGA IFU Galaxy Survey: Emission-line Modeling

Evidence for the Accretion of Gas in Star-forming Galaxies: High N/O Abundances in Regions of Anomalously Low Metallicity


Windfarm Operations & Maintenance cost-Benefit Analysis Tool


[CVPR 2023] Official Implementation of X-Decoder for generalized decoding for pixel, image and language

Generalized Decoding for Pixel, Image, and Language

A Simple Framework for Open-Vocabulary Segmentation and Detection

Segment Any Point Cloud Sequences by Distilling Vision Foundation Models

Learning to Follow Object-Centric Image Editing Instructions Faithfully


Routines used by the USGS Coastal/Marine Hazards & Resources Program to process oceanographic time-series data


expVIP. EXPression and VIsualisation Platform

A roadmap for gene functional characterisation in crops with large genomes: Lessons from polyploid wheat

Genome-Wide Transcription During Early Wheat Meiosis Is Independent of Synapsis, Ploidy Level, and the Ph1 Locus

Rust expression browser: an open source database for simultaneous analysis of host and pathogen gene expression profiles with expVIP


TensorFlow implementation of an arbitrary order Factorization Machine

Neural Factorization Machines for Sparse Predictive Analytics

Attentional Factorization Machines: Learning the Weight of Feature Interactions via Attention Networks

Higher-Order Factorization Machines

Exponential Machines

Leveraging multi-way interactions for systematic prediction of pre-clinical drug combination effects

Efficient Neural Interaction Function Search for Collaborative Filtering

Tensor Train polynomial models via Riemannian optimization

User models for multi-context-aware music recommendation

Predicting Stances from Social Media Posts using Factorization Machines

International Conference on Computational Linguistics

Supervised Learning for Nonsequential Data: A Canonical Polyadic Decomposition Approach


[Unofficial] PyTorch implementation of "Conformer: Convolution-augmented Transformer for Speech Recognition" (INTERSPEECH 2020)

Transformer-XL: Attentive Language Models Beyond a Fixed-Length Context

When Good and Reproducible Results are a Giant with Feet of Clay: The
  Importance of Software Quality in NLP

Multi-level Temporal-channel Speaker Retrieval for Robust Zero-shot
  Voice Conversion

Delivering Speaking Style in Low-resource Voice Conversion with
  Multi-factor Constraints

MSM-VC: High-Fidelity Source Style Transfer for Non-Parallel Voice Conversion by Multi-Scale Style Modeling


Mistral: A strong, northwesterly wind: Framework for transparent and accessible large-scale language model training, built with Hugging Face   Transformers.

Deduplicating Training Data Mitigates Privacy Risks in Language Models

The MultiBERTs: BERT Reproductions for Robustness Analysis

Privacy Issues in Large Language Models: A Survey

Why Do We Need Weight Decay in Modern Deep Learning?

Successor Heads: Recurring, Interpretable Attention Heads In The Wild


A tool for predicting unsafe road scenarios for self-driving cars in BeamNG.tech.

Cost-effective Simulation-based Test Selection in Self-driving Cars Software with SDC-Scissor

Machine Learning-based Test Selection for Simulation-based Testing of
  Self-driving Cars Software

TEASER: Simulation-Based CAN Bus Regression Testing for Self-Driving Cars Software


Code for reproducing key results in the paper "InfoGAN: Interpretable Representation Learning by Information Maximizing Generative Adversarial Nets"

HoloGAN: Unsupervised Learning of 3D Representations From Natural Images

Unsupervised Learning via Meta-Learning

Generative Adversarial Networks for Image Augmentation in Agriculture: A
  Systematic Review

Ten Years of Generative Adversarial Nets (GANs): A survey of the state-of-the-art


Gpu Accelerated Library for Analysing Radio Interferometer Observations

GALARIO: a GPU accelerated library for analysing radio interferometer observations

Monthly Notices of the Royal Astronomical Society

High-resolution Millimeter Imaging of the CI Tau Protoplanetary Disk: A Massive Ensemble of Protoplanets from 0.1 to 100 au

Multiwavelength continuum sizes of protoplanetary discs: scaling relations and implications for grain growth and radial drift

Synthetic observations of star formation and the interstellar medium

The VLA/ALMA Nascent Disk and Multiplicity (VANDAM) Survey of Orion Protostars. IV. Unveiling the Embedded Intermediate-Mass Protostar and Disk within OMC2-FIR3/HOPS-370


Residual networks implementation using Keras-1.0 functional API

Deep Residual Learning for Image Recognition

Identity Mappings in Deep Residual Networks

Ludwig: a type-based declarative deep learning toolbox

New High-quality Strong Lens Candidates with Deep Learning in the Kilo-Degree Survey

High-quality strong lens candidates in the final Kilo Degree survey footprint

ECG-iCOVIDNet: Interpretable AI model to identify changes in the ECG signals of post-COVID subjects

MAG-Net: Mutli-task attention guided network for brain tumor segmentation and classification.

Vehicle classification using ResNets, localisation and
  spatially-weighted pooling


Mastering Diverse Domains through World Models

TD-MPC2: Scalable, Robust World Models for Continuous Control

Informed POMDP: Leveraging Additional Information in Model-Based RL

Semantic HELM: A Human-Readable Memory for Reinforcement Learning

Discovering Hierarchical Achievements in Reinforcement Learning via
  Contrastive Learning


ReCiter: an enterprise open source author disambiguation system for academic institutions

Research evaluation support services in biomedical libraries

Journal of the Medical Library Association : JMLA

ReCiter: An open source, identity-driven, authorship prediction algorithm optimized for academic institutions

Leveraging Wikidata to Build Scholarly Profiles as Service

KULA: Knowledge Creation, Dissemination, and Preservation Studies


allesfitter is a convenient wrapper around the packages ellc (light curve and RV models), dynesty (static and dynamic nested sampling) emcee (Markov Chain Monte Carlo sampling) and celerite (Gaussian Process models).

Allesfitter: Flexible Star and Exoplanet Inference from Photometry and Radial Velocity

Complex Rotational Modulation of Rapidly Rotating M Stars Observed with TESS

The Aligned Orbit of the Eccentric Warm Jupiter K2-232b

HD 191939: Three Sub-Neptunes Transiting a Sun-like Star Only 54 pc Away

TOI 694b and TIC 220568520b: Two Low-mass Companions near the Hydrogen-burning Mass Limit Orbiting Sun-like Stars

Long-term stellar activity variations and their effect on radial-velocity measurements

NGTS-8b and NGTS-9b: two non-inflated hot Jupiters

A sub-Neptune transiting the young field star HD 18599 at 40 pc


Diffusion Models for Video Prediction and Infilling

On Uni-Modal Feature Learning in Supervised Multi-Modal Learning

Performance Evaluation of Action Recognition Models on Low Quality Videos

Similarity contrastive estimation for image and video soft contrastive self-supervised learning

Efficient Attention-free Video Shift Transformers


A grammar of graphics for comparative genomics

Virophages and retrotransposons colonize the genomes of a heterotrophic flagellate

Transcriptome mining extends the host range of theFlaviviridaeto non-bilaterians

Unlocking the Complete Chloroplast Genome of a Native Tree Species from the Amazon Basin, Capirona (Calycophyllum Spruceanum, Rubiaceae), and Its Comparative Analysis with Other Ixoroideae Species

Widespread yet persistent low abundance of TIM5-like cyanophages in the oceans.

Population dynamics and characteristics of Klebsiella pneumoniae from healthy poultry in Norway

Endogenous virophages are active and mitigate giant virus infection in the marine protist Cafeteria burkhardae

Proceedings of the National Academy of Sciences of the United States of America

Phased grapevine genome sequence of an Rpv12 carrier for biotechnological exploration of resistance to Plasmopara viticola


Software Development Kit for the Oxford Robotcar Dataset

The Oxford Radar RobotCar Dataset: A Radar Extension to the Oxford RobotCar Dataset

Real-time Kinematic Ground Truth for the Oxford RobotCar Dataset

Regularizing Nighttime Weirdness: Efficient Self-supervised Monocular Depth Estimation in the Dark


Official implementation of VQ-Diffusion

Vector Quantized Diffusion Model for Text-to-Image Synthesis

Improved Vector Quantized Diffusion Models

DIRE for Diffusion-Generated Image Detection

LayoutDiffusion: Improving Graphic Layout Generation by Discrete Diffusion Probabilistic Models

Diffusion Reward: Learning Rewards via Conditional Video Diffusion