A Python toolkit/library for reality-centric machine/deep learning and data mining on partially-observed time series, including SOTA neural network models for scientific analysis tasks of imputation/classification/clustering/forecasting/anomaly detection/cleaning on incomplete industrial (irregularly-sampled) multivariate TS with NaN missing values

Attention Is All You Need

Informer: Beyond Efficient Transformer for Long Sequence Time-Series Forecasting

Recurrent Neural Networks for Multivariate Time Series with Missing Values

Autoformer: Decomposition Transformers with Auto-Correlation for Long-Term Series Forecasting

Are Transformers Effective for Time Series Forecasting?

FEDformer: Frequency Enhanced Decomposed Transformer for Long-term Series Forecasting

A Time Series is Worth 64 Words: Long-term Forecasting with Transformers

BRITS: Bidirectional Recurrent Imputation for Time Series

Spectral Temporal Graph Neural Network for Multivariate Time-series Forecasting

TimesNet: Temporal 2D-Variation Modeling for General Time Series Analysis


15000 Ellipsoidal Binary Candidates in TESS: Orbital Periods, Binary Fraction, and Tertiary Companions

USuRPER: Unit-sphere representation periodogram for full spectra

New periodograms separating orbital radial velocities and spectral shape variation


PSF Imagette Photometric Extraction - PSF photometry for CHEOPS data

The atmosphere and architecture of WASP-189 b probed by its CHEOPS phase curve

CHEOPS geometric albedo of the hot Jupiter HD 209458 b

Phase curve and geometric albedo of WASP-43b measured with CHEOPS, TESS, and HST WFC3/UVIS

TOI-5678b: A 48-day transiting Neptune-mass planet characterized with CHEOPS and HARPS

Two warm Neptunes transiting HIP 9618 revealed by TESS and Cheops

Monthly Notices of the Royal Astronomical Society

The geometric albedo of the hot Jupiter HD 189733b measured with CHEOPS

TESS and CHEOPS discover two warm sub-Neptunes transiting the bright K-dwarf HD 15906

Monthly notices of the Royal Astronomical Society

The HD 93963 A transiting system: A 1.04 d super-Earth and a 3.65 d sub-Neptune discovered by TESS and CHEOPS

Refined parameters of the HD 22946 planetary system and the true orbital period of planet d

55 Cancri e's occultation captured with CHEOPS


Parallelformers: An Efficient Model Parallelization Toolkit for Deployment

AMMUS : A Survey of Transformer-based Pretrained Models in Natural Language Processing

Few-Shot Bot: Prompt-Based Learning for Dialogue Systems

Comparative Performance Evaluation of Large Language Models for Extracting Molecular Interactions and Pathway Knowledge

Automated Extraction of Molecular Interactions and Pathway Knowledge using Large Language Model, Galactica: Opportunities and Challenges

Workshop on Biomedical Natural Language Processing


Tempo is a program for pulsar timing data analysis.

The NANOGrav 15 yr Data Set: Observations and Timing of 68 Millisecond Pulsars

The NANOGrav 12.5 yr Data Set: Observations and Narrowband Timing of 47 Millisecond Pulsars

The Astrophysical Journal Supplement Series

Asymmetric mass ratios for bright double neutron-star mergers

Timing of 29 Pulsars Discovered in the PALFA Survey

Pulsar Timing Array Experiments


Dinoflagellate Annotation Workflow

Whole-genome duplication in an algal symbiont bolsters coral heat tolerance

Improved Cladocopium goreaui Genome Assembly Reveals Features of a Facultative Coral Symbiont and the Complex Evolutionary History of Dinoflagellate Genes

Massive genome reduction predates the divergence of Symbiodiniaceae dinoflagellates


Dutch abusive language data

DALC: the Dutch Abusive Language Corpus

WOAH 2021: THE 5TH WORKSHOP ON ONLINE ABUSE AND HARMS

“Zo Grof !”: A Comprehensive Corpus for Offensive and Abusive Language in Dutch

Proceedings of the Sixth Workshop on Online Abuse and Harms (WOAH)

Benchmarking Offensive and Abusive Language in Dutch Tweets

The 7th Workshop on Online Abuse and Harms (WOAH)


Automating the Design of Multigrid Methods with Evolutionary Program Synthesis

ExaStencils: Advanced Multigrid Solver Generation

Software for Exascale Computing - SPPEXA 2016-2019

Optimizing Geometric Multigrid Methods with Evolutionary Computation


The QUB Transient Classifier

RAPID: Early Classification of Explosive Transients Using Deep Learning

Publications of the Astronomical Society of the Pacific

Machine-learning-based Brokers for Real-time Classification of the LSST Alert Stream

Star Formation and Morphological Properties of Galaxies in the Pan-STARRS 3π Survey. I. A Machine-learning Approach to Galaxy and Supernova Classification

The Young Supernova Experiment Data Release 1 (YSE DR1): Light Curves and Photometric Classification of 1975 Supernovae

The fast transient AT 2023clx in the nearby LINER galaxy NGC 3799 as a tidal disruption of a very low-mass star

Metallicity beats sSFR: the connection between superluminous supernova host galaxy environments and the importance of metallicity for their production


Code and scripts for NAACL 2022 industry track paper "Fast and Light-weight Answer Text Retrieval in Dialogue Systems". Built on top of ColBERT (https://github.com/stanford-futuredata/ColBERT).

ColBERT: Efficient and Effective Passage Search via Contextualized Late Interaction over BERT

Relevance-guided Supervision for OpenQA with ColBERT

Fast and Light-Weight Answer Text Retrieval in Dialogue Systems


Wavelet Phase Harmonics in PyTorch for Images

A new approach for the statistical denoising of Planck interstellar dust polarization data

Single frequency CMB B-mode inference with realistic foregrounds from a single training image

Monthly Notices of the Royal Astronomical Society: Letters

Generative Models of Multichannel Data from a Single Example—Application to Dust Emission


A tool to construct repeats directly from raw reads

REPdenovo: Inferring De Novo Repeat Motifs from Short Sequence Reads

Sequencing and Functional Annotation of the Whole Genome of Shiraia bambusicola

An improved approach for reconstructing consensus repeats from short sequence reads


NOW - Numerical Optimization of gradient Waveforms

Maxwell‐compensated design of asymmetric gradient waveforms for tensor‐valued diffusion encoding

Tensor‐valued diffusion MRI in under 3 minutes: an initial survey of microscopic anisotropy and tissue heterogeneity in intracranial tumors

Linear, planar and spherical tensor-valued diffusion MRI data by free waveform encoding in healthy brain, water, oil and liquid crystals

Improved fibre dispersion estimation using b-tensor encoding

Cardiac q‐space trajectory imaging by motion‐compensated tensor‐valued diffusion encoding in human heart in vivo

In vivo diffusion MRI of the human heart using a 300 mT/m gradient system

Visualizing orientation-specific relaxation-diffusion features mapped onto orientation distribution functions estimated via nonparametric Monte Carlo MRI signal inversion


News Article Corpus from Prachathai.com

WangchanBERTa: Pretraining transformer-based Thai Language Models

Thai Nested Named Entity Recognition Corpus

Findings of the Association for Computational Linguistics: ACL 2022

More Than Words: Collocation Retokenization for Latent Dirichlet Allocation Models

More Than Words: Collocation Tokenization for Latent Dirichlet Allocation Models


fast thermo-chemical equilibrium code with or without equilibrium condensation down to 100K

Equilibrium chemistry down to 100 K. Impact of silicates and phyllosilicates on the carbon to oxygen ratio

Understanding the atmospheric properties and chemical composition of the ultra-hot Jupiter HAT-P-7b

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

Implementation of disequilibrium chemistry to spectral retrieval code ARCiS and application to sixteen exoplanet transmission spectra: Indication of disequilibrium chemistry for HD 209458b and WASP-39b.

ThERESA: Three-dimensional Eclipse Mapping with Application to Synthetic JWST Data

High-resolution Transmission Spectroscopy of the Terrestrial Exoplanet GJ 486b

High-resolution Emission Spectroscopy of the Ultrahot Jupiter KELT-9b: Little Variation in Day- and Nightside Emission Line Contrasts

Sublimation of refractory minerals in the gas envelopes of accreting rocky planets

Data availability and requirements relevant for the Ariel space mission
  and other exoplanet atmosphere applications


A solution that helps apply a privacy preserving mechanism to NLP data, using Amazon SageMaker.

Membership Inference Attacks against Machine Learning Models

Auditing Data Provenance in Text-Generation Models

Privacy- and Utility-Preserving Textual Analysis via Calibrated Multivariate Perturbations


Capacity Expansion Model and Optimiser for the Australian National Energy Market


ST-MoE: Designing Stable and Transferable Sparse Expert Models

MegaBlocks: Efficient Sparse Training with Mixture-of-Experts

Mixture of Attention Heads: Selecting Attention Heads Per Token

OLMoE: Open Mixture-of-Experts Language Models


WordNet-LMF formats

Open Dutch WordNet

Building the Cantonese Wordnet

Some Issues with Building a Multilingual Wordnet

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

Pinchah Kristang: A Dictionary of Kristang

Building the Old Javanese Wordnet

Abui Wordnet: Using a Toolbox Dictionary to develop a wordnet for a low-resource language

The Making of Coptic Wordnet

Enriching Linguistic Representation in the Cantonese Wordnet and Building the New Cantonese Wordnet Corpus

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION


Yet another symmetric tensor network

Incommensurate order with translationally invariant projected entangled-pair states: Spiral states and quantum spin liquid on the anisotropic triangular lattice

Efficient representation of minimally entangled typical thermal states in two dimensions via projected entangled pair states

YASTN: Yet another symmetric tensor networks; A Python library for
  abelian symmetric tensor network calculations


Toolkit for atmospheric characterization of directly imaged exoplanets

MIRACLES: atmospheric characterization of directly imaged planets and substellar companions at 4–5 μm - II. Constraints on the mass and radius of the enshrouded planet PDS 70 b

GRAVITY K-band spectroscopy of HD 206893 B: brown dwarf or exoplanet

First VLTI/GRAVITY Observations of HIP 65426 b: Evidence for a Low or Moderate Orbital Eccentricity

Radiative transfer and inversion codes for characterizing planetary atmospheres: an overview

Frontiers in Astronomy and Space Sciences

Searching for low-mass companions at small separations in transition disks with aperture masking interferometry


A repository containing the code for speech translation papers.

Diverse Beam Search: Decoding Diverse Solutions from Neural Sequence Models

CTC-based Compression for Direct Speech Translation

Under the Morphosyntactic Lens: A Multifaceted Evaluation of Gender Bias in Speech Translation

On Knowledge Distillation for Direct Speech Translation

Contextualized Translation of Automatically Segmented Speech

How to Split: the Effect of Word Segmentation on Gender Bias in Speech Translation

Between Flexibility and Consistency: Joint Generation of Captions and Subtitles


An implementation of demixed Principal Component Analysis (a supervised linear dimensionality reduction technique)

Demixed principal component analysis of neural population data

Neural ensemble dynamics in dorsal motor cortex during speech in people with paralysis

Learning identifiable and interpretable latent models of high-dimensional neural activity using pi-VAE

Recurrent circuitry is required to stabilize piriform cortex odor representations across brain states

Thalamus-driven functional populations in frontal cortex support decision-making

Mechanisms that allow cortical preparatory activity without inappropriate movement

State-dependent geometry of population activity in rat auditory cortex

Neuronal Representation of Locomotion During Motivated Behavior in the Mouse Anterior Cingulate Cortex

Multiple tasks viewed from the neural manifold: Stable control of varied behavior

An output-null signature of inertial load in motor cortex

bioRxiv : the preprint server for biology


Image-Process based Atmospheric River Tracking (IPART) algorithms

A Comparison of Northern Hemisphere Atmospheric Rivers Detected by a New Image-Processing Based Method and Magnitude-Thresholding Based Methods

Atmospheric rivers and associated extreme rainfall over Morocco

Detection of Atmospheric Rivers in the Northern Hemisphere based on ERA5 reanalysis data and the IPART algorithm, 1979-2020

Zenodo (CERN European Organization for Nuclear Research)


uops.info: Characterizing Latency, Throughput, and Port Usage of Instructions on Intel Microarchitectures

TWENTY-FOURTH INTERNATIONAL CONFERENCE ON ARCHITECTURAL SUPPORT FOR PROGRAMMING LANGUAGES AND OPERATING SYSTEMS (ASPLOS XXIV)

DiffTune: Optimizing CPU Simulator Parameters with Learned Differentiable Surrogates

SLEEF: A Portable Vectorized Library of C Standard Mathematical Functions

IEEE Transactions on Parallel and Distributed Systems

GRANITE: A Graph Neural Network Model for Basic Block Throughput Estimation

PMEvo: Portable Inference of Port Mappings for Out-of-Order Processors by Evolutionary Optimization

AnICA: Analyzing Inconsistencies in Microarchitectural Code Analyzers


Out-of-distribution detection using the pNML regret. NeurIPS2021

A Baseline for Detecting Misclassified and Out-of-Distribution Examples in Neural Networks

Enhancing The Reliability of Out-of-distribution Image Detection in Neural Networks

Detecting Out-of-Distribution Examples with In-distribution Examples and Gram Matrices

Single Layer Predictive Normalized Maximum Likelihood for Out-of-Distribution Detection


Bayesian reconstruction of ancient DNA fragments

Genomic analyses of hair from Ludwig van Beethoven

Ancient Xinjiang mitogenomes reveal intense admixture with high genetic diversity

Genetic Continuity of Bronze Age Ancestry with Increased Steppe-Related Ancestry in Late Iron Age Uzbekistan

Ancient Mitogenomes Reveal the Maternal Genetic History of East Asian Dogs


A python package for making arbitrarily structured, arbitrary-dimension boxes

Intensity mapping cross-correlations II: HI halo models including shot noise

Monthly Notices of the Royal Astronomical Society

An Improved Statistical Point-source Foreground Model for the Epoch of Reionization

Closing the window on fuzzy dark matter with the 21-cm signal

powerbox: A Python package for creating structured fields with isotropic power spectra

The importance of galaxy formation histories in models of reionization

New tool for 21-cm cosmology. I. Probing
ΛCDM
 and beyond

New tool for 21-cm cosmology. II. Investigating the effect of early linear fluctuations

Topological data analysis reveals differences between simulated galaxies and dark matter haloes

Effects of feedback-free starburst galaxies on the 21-cm signal and reionization history


An OpenSource LED stimulator for visual and optogenetics stimulation in combination with 2-photon recording

LED Zappelin’: An open source LED controller for arbitrary spectrum visual stimulation and optogenetics during 2-photon imaging

Non-telecentric two-photon microscopy for 3D random access mesoscale imaging

Divergent excitation two photon microscopy for 3D random access mesoscale imaging at single cell resolution

What the Zebrafish's Eye Tells the Zebrafish's Brain: Retinal Ganglion Cells for Prey Capture and Colour Vision


✨ Hotshot-XL: State-of-the-art AI text-to-GIF model trained to work alongside Stable Diffusion XL

VideoCrafter1: Open Diffusion Models for High-Quality Video Generation

VideoCrafter2: Overcoming Data Limitations for High-Quality Video Diffusion Models

GAIA: Rethinking Action Quality Assessment for AI-Generated Videos

GenDDS: Generating Diverse Driving Video Scenarios with Prompt-to-Video Generative Model


Genome-wide scan for balancing selection using beta statistic

BetaScan2: Standardized Statistics to Detect Balancing Selection Utilizing Substitution Data

Inferring Balancing Selection From Genome-Scale Data

Balancing selection on genomic deletion polymorphisms in humans

Accounting for diverse evolutionary forces reveals the mosaic nature of selection on genomic regions associated with human preterm birth

Genetic diversity in the IZUMO1-JUNO protein-receptor pair involved in human reproduction


[NeurIPS 2022]  Official repository of paper titled "Bridging the Gap between Object and Image-level Representations for Open-Vocabulary Detection".

Open-vocabulary Object Detection via Vision and Language Knowledge Distillation

PromptDet: Towards Open-Vocabulary Detection Using Uncurated Images


Simulation framework for customs fraud detection using import declarations.

DATE: Dual Attentive Tree-aware Embedding for Customs Fraud Detection

Active Learning for Human-in-the-Loop Customs Inspection

Customs Fraud Detection in the Presence of Concept Drift


DeeP-LCC for mixed traffic

DeeP-LCC: Data-EnablEd Predictive Leading Cruise Control in Mixed Traffic Flow

Data-Driven Predictive Control for Connected and Autonomous Vehicles in Mixed Traffic

Implementation and Experimental Validation of Data-Driven Predictive Control for Dissipating Stop-and-Go Waves in Mixed Traffic


Home of the Language Ecosystem for Modeling Microservice Architecture (LEMMA)

A Modeling Method for Systematic Architecture Reconstruction of Microservice-Based Software Systems

Lecture notes in business information processing

Graphical and Textual Model-Driven Microservice Development

Towards a UML Profile for Domain-Driven Design of Microservice Architectures

SOFTWARE ENGINEERING AND FORMAL METHODS, SEFM 2017

Applying Model-Driven Engineering to Stimulate the Adoption of DevOps Processes in Small and Medium-Sized Development Organizations

A model-driven workflow for distributed microservice development

SAC '19: PROCEEDINGS OF THE 34TH ACM/SIGAPP SYMPOSIUM ON APPLIED COMPUTING

Model-Driven Generation of Microservice Interfaces: From LEMMA Domain Models to Jolie APIs

Microservice Architecture and Model-driven Development: Yet Singles, Soon Married (?)

International Conference on Agile Software Development

COORDINATION - Jolie and LEMMA: Model-Driven Engineering and Programming Languages Meet on Microservices

Exploring the Microservice Development Process in Small and Medium-Sized Organizations

Product Focused Software Process Improvement

Collaborative model-driven software engineering and microservice architecture: a perfect match?


Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.

Genome-wide association study identifies Sjögren's risk loci with functional implications in immune and glandular cells.

Fine-mapping of Parkinson’s disease susceptibility loci identifies putative causal variants

echolocatoR: an automated end-to-end statistical and functional genomic fine-mapping pipeline

Genetic meta-analysis of levodopa induced dyskinesia in Parkinson’s disease

Genome-wide Analysis of Motor Progression in Parkinson Disease

Association of genetic variation at the GJA5/ACP6 locus with motor progression in Parkinson's


RNASeq pipeline

Local light signaling at the leaf tip drives remote differential petiole growth through auxin-gibberellin dynamics

Prioritization of genes driving congenital phenotypes of patients with de novo genomic structural variants

XPRESSyourself: Enhancing, standardizing, and automating ribosome profiling computational analyses yields improved insight into data

A System-wide Approach to Monitor Responses to Synergistic BRAF and EGFR Inhibition in Colorectal Cancer Cells

Whole transcriptome analysis of canine pheochromocytoma and paraganglioma

Locational memory of macrovessel vascular cells is transcriptionally imprinted


An open source toolkit for multimodal generative conversational task assistants, helping assist people with real-world complex tasks

VILT: Video Instructions Linking for Complex Tasks

Proceedings of the 2nd International Workshop on Interactive Multimedia Retrieval

GRILLBot In Practice: Lessons and Tradeoffs Deploying Large Language
  Models for Adaptable Conversational Task Assistants

GRILLBot: A multi-modal conversational agent for complex real-world tasks


R client for the OBIS API

Enhancing georeferenced biodiversity inventories: automated information extraction from literature records reveal the gaps


My CV

emcee: The MCMC Hammer

Publications of the Astronomical Society of the Pacific

corner.py: Scatterplot matrices in Python

Fast and Scalable Gaussian Process Modeling with Applications to Astronomical Time Series

Fast Direct Methods for Gaussian Processes

A seven-planet resonant chain in TRAPPIST-1

State of the Field: Extreme Precision Radial Velocities

A Kinematical Detection of Two Embedded Jupiter-mass Planets in HD 163296

EXOPLANET POPULATION INFERENCE AND THE ABUNDANCE OF EARTH ANALOGS FROM NOISY, INCOMPLETE CATALOGS

starry: Analytic Occultation Light Curves

EVEREST: Pixel Level Decorrelation of K2 Light curves


[EMNLP 2022] Unifying and multi-tasking structured knowledge grounding with language models

Instruction Tuning for Large Language Models: A Survey

UnifiedSKG: Unifying and Multi-Tasking Structured Knowledge Grounding with Text-to-Text Language Models

How Does In-Context Learning Help Prompt Tuning?

Aligning Language Models with Human Preferences via a Bayesian Approach

Testing the Limits of Unified Sequence to Sequence LLM Pretraining on Diverse Table Data Tasks

Explaining Large Language Model-Based Neural Semantic Parsers (Student Abstract)

Structured Case-based Reasoning for Inference-time Adaptation of Text-to-SQL parsers


A sparse polynomial optimization tool based on the moment-SOS hierarchy.

Chordal-TSSOS: A Moment-SOS Hierarchy That Exploits Term Sparsity with Chordal Extension

CS-TSSOS: Correlative and Term Sparsity for Large-Scale Polynomial Optimization

Sparse Polynomial Optimization: Theory and Practice

TSSOS: a Julia library to exploit sparsity for large-scale polynomial optimization

Exploiting Sparsity in Complex Polynomial Optimization

Certifying global optimality of AC-OPF solutions via sparse polynomial optimization

Benchmarking Large-Scale ACOPF Solutions and Optimality Bounds

A Correlatively Sparse Lagrange Multiplier Expression Relaxation for Polynomial Optimization

Fairness in Forecasting of Observations of Linear Dynamical Systems

A more efficient reformulation of complex SDP as real SDP


whole genome MLST analysis

Population structure of community-acquired extended-spectrum beta-lactamase producing Escherichia coli and methicillin resistant Staphylococcus aureus in a French region showed no difference between urban and rural areas

Genome analysis of third-generation cephalosporin-resistant Escherichia coli and Salmonella species recovered from healthy and diseased food-producing animals in Europe


An ultra-fast equilibrium chemistry

FastChem: A computer program for efficient complex chemical equilibrium calculations in the neutral/ionized gas phase with applications to stellar and planetary atmospheres

Monthly notices of the Royal Astronomical Society

The Peculiar Atmospheric Chemistry of KELT-9b

Non-local thermodynamic equilibrium effects determine the upper atmospheric temperature structure of the ultra-hot Jupiter KELT-9b

K2 and Spitzer phase curves of the rocky ultra-short-period planet K2-141 b hint at a tenuous rock vapor atmosphere

FastChem 2: An improved computer program to determine the gas-phase
  chemical equilibrium composition for arbitrary element distributions

Vanadium oxide and a sharp onset of cold-trapping on a giant exoplanet

Observability of evaporating lava worlds

Atmospheric compositions and observability of nitrogen-dominated ultra-short-period super-Earths

Reduced Atmospheres of Post-impact Worlds: The Early Earth

The Mantis Network I: A standard grid of templates and masks for cross-correlation analyses of ultra-hot Jupiter transmission spectra


MATLAB code for Multidimensional Diffusion MRI

Maxwell‐compensated design of asymmetric gradient waveforms for tensor‐valued diffusion encoding

Tensor-valued diffusion encoding for diffusional variance decomposition (DIVIDE): Technical feasibility in clinical MRI systems

Tensor‐valued diffusion MRI in under 3 minutes: an initial survey of microscopic anisotropy and tissue heterogeneity in intracranial tumors

Gradient waveform design for tensor-valued encoding in diffusion MRI

Tensor-valued diffusion MRI differentiates cortex and white matter in malformations of cortical development associated with epilepsy

Linear, planar and spherical tensor-valued diffusion MRI data by free waveform encoding in healthy brain, water, oil and liquid crystals

Neural networks for parameter estimation in microstructural MRI: Application to a diffusion-relaxation model of white matter

Mapping prostatic microscopic anisotropy using linear and spherical b-tensor encoding: A preliminary study

Histogram analysis of tensor-valued diffusion MRI in meningiomas: Relation to consistency, histological grade and type

Applying positivity constraints to q-space trajectory imaging: The QTI+ implementation


Dense image captioning in Torch

DenseCap: Fully Convolutional Localization Networks for Dense Captioning

Fooling Vision and Language Models Despite Localization and Attention Mechanism

Multimodal Neural Graph Memory Networks for Visual Question Answering

Meeting of the Association for Computational Linguistics

Deep Generative Probabilistic Graph Neural Networks for Scene Graph Generation

THIRTY-FOURTH AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE, THE THIRTY-SECOND INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE AND THE TENTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE

Double Attention-based Multimodal Neural Machine Translation with Semantic Image Regions

European Association for Machine Translation Conferences/Workshops

When an Image Tells a Story: The Role of Visual and Semantic Information for Generating Paragraph Descriptions

Proceedings of the 13th International Conference on Natural Language Generation

Understanding Advertisements with BERT

Dense Video Object Captioning from Disjoint Supervision


A PyTorch implementation of "Real-time Scene Text Detection with Differentiable Binarization".

Real-Time Scene Text Detection With Differentiable Binarization and Adaptive Scale Fusion

Turning a CLIP Model into a Scene Text Detector

MaskOCR: Text Recognition with Masked Encoder-Decoder Pretraining

Language Matters: A Weakly Supervised Vision-Language Pre-training Approach for Scene Text Detection and Spotting

Vision-Language Pre-Training for Boosting Scene Text Detectors

Scene Text Detection in Natural Images: A Review

Towards Robust Real-Time Scene Text Detection: From Semantic to Instance Representation Learning

UNITS: Unsupervised Intermediate Training Stage for Scene Text Detection


Tomofast-x is a 3D parallel inversion platform to run single domain or joint inversion of gravity and magnetic data.

Integration of geoscientific uncertainty into geophysical inversion by means of local gradient regularization

Sensitivity of constrained joint inversions to geological and petrophysical input data uncertainties with posterior geological analysis

Disjoint interval bound constraints using the alternating direction method of multipliers for geologically constrained inversion: Application to gravity data

Towards plausible lithological classification from geophysical inversion: honouring geological principles in subsurface imaging

Parallel three-dimensional electrical capacitance data imaging using a nonlinear inversion algorithm and Lp norm-based model regularization

Structural, petrophysical, and geological constraints in potential field inversion using the Tomofast-x v1.0 open-source code

Three-dimensional gravity anomaly data inversion in the Pyrenees using compressional seismic velocity model as structural similarity constraints

Utilisation of probabilistic magnetotelluric modelling to constrain magnetic data inversion: proof-of-concept and field application


Countering Malicious DeepFakes: Survey, Battleground, and Horizon

Deepfake Detection using Spatiotemporal Convolutional Networks

GBDF: Gender Balanced DeepFake Dataset Towards Fair DeepFake Detection


Google AI 2018 BERT pytorch implementation

BERT: Pre-training of Deep Bidirectional Transformers for Language Understanding

Unlocking the Power of Deep PICO Extraction: Step-wise Medical NER Identification

RPT: Toward Transferable Model on Heterogeneous Researcher Data via Pre-Training

Improving Neural Machine Translation with Pre-trained Representation

DARE: Distill and Reinforce Ensemble Neural Networks for Climate-Domain Processing


Python wrapper for the Elexon/BMRS API

A Collection and Categorization of Open-Source Wind and Wind Power Datasets


Conditional out-of-distribution prediction

Conditional out-of-distribution generation for unpaired data using transfer VAE.

Application of Deep Learning on Single-cell RNA Sequencing Data Analysis: A Review

基因组蛋白质组与生物信息学报

Conditional out-of-sample generation for unpaired data using trVAE


A Monte Carlo ray tracer for the optical simulation of solar concentrating systems


ReFramed: metabolic modeling package

CNApy: a CellNetAnalyzer GUI in Python for analyzing and designing metabolic networks

Constraint-Based Reconstruction and Analyses of Metabolic Models: Open-Source Python Tools and Applications to Cancer

Dynamic metagenome‐scale metabolic modeling of a yogurt bacterial community

Leveraging phylogenetic signal to unravel microbiome function and assembly rules

Computational and structural biotechnology journal


LagrangeBench: A Lagrangian Fluid Mechanics Benchmarking Suite

Learning to Simulate Complex Physics with Graph Networks

Learning Lagrangian Fluid Mechanics with E(3)-Equivariant Graph Neural Networks

Neural SPH: Improved Neural Modeling of Lagrangian Fluid Dynamics

JAX-SPH: A Differentiable Smoothed Particle Hydrodynamics Framework


Benchmarks for DyNet

DyNet: The Dynamic Neural Network Toolkit

On-the-fly Operation Batching in Dynamic Computation Graphs

Comparing CRF and LSTM performance on the task of morphosyntactic tagging of non-standard varieties of South Slavic languages

International Conference on Computational Linguistics


python library for invisible image watermark (blind image watermark)

The Stable Signature: Rooting Watermarks in Latent Diffusion Models

Robust Invisible Video Watermarking with Attention

Watermark-based Detection and Attribution of AI-Generated Content

A Watermark-Conditioned Diffusion Model for IP Protection

AMUSE: Adaptive Multi-Segment Encoding for Dataset Watermarking

A Solution toward Transparent and Practical AI Regulation: Privacy
  Nutrition Labels for Open-source Generative AI-based Applications

UnMarker: A Universal Attack on Defensive Watermarking


A Python module for carrying out GCMC insertions and deletions of water molecules in OpenMM.

Water Sites, Networks, And Free Energies with Grand Canonical Monte Carlo

Journal of the American Chemical Society

Replica-Exchange and Standard State Binding Free Energies with Grand Canonical Monte Carlo

Journal of chemical theory and computation

Enhancing Sampling of Water Rehydration on Ligand Binding: A Comparison of Techniques

grand: A Python Module for Grand Canonical Water Sampling in OpenMM

Journal of chemical information and modeling


Libraries to analyze numerical simulations (python3)

The CAMELS Project: Cosmology and Astrophysics with Machine-learning Simulations

Nearest neighbour distributions: New statistical measures for cosmological clustering

Monthly Notices of the Royal Astronomical Society

The CAMELS Multifield Data Set: Learning the Universe’s Fundamental Parameters with Artificial Intelligence

A Lagrangian perturbation theory in the presence of massive neutrinos

Journal of Cosmology and Astroparticle Physics

Cosmological cross-correlations and nearest neighbour distributions

Learning Cosmology and Clustering with Cosmic Graphs

Neural networks as optimal estimators to marginalize over baryonic effects

Field Level Neural Network Emulator for Cosmological N-body Simulations

Quijote-PNG: The Information Content of the Halo Power Spectrum and Bispectrum

Quijote-PNG: Simulations of Primordial Non-Gaussianity and the Information Content of the Matter Field Power Spectrum and Bispectrum


Coding Genome Reconstruction using Iso-Seq data

Long read reference genome-free reconstruction of a full-length transcriptome from Astragalus membranaceus reveals transcript variants involved in bioactive compound biosynthesis

De Novo Clustering of Long-Read Transcriptome Data Using a Greedy, Quality Value-Based Algorithm

Reconstruction of the full-length transcriptome atlas using PacBio Iso-Seq provides insight into the alternative splicing in Gossypium australe

Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus

Efficient CRISPR/Cas9 mutagenesis for neurobehavioral screening in adult zebrafish

Utilizing PacBio Iso-Seq for Novel Transcript and Gene Discovery of Abiotic Stress Responses in Oryza sativa L.

International journal of molecular sciences

SMRT Sequencing of a Full-length Transcriptome Reveals Transcript Variants Involved in C18 Unsaturated Fatty Acid Biosynthesis and Metabolism Pathways at Chilling Temperature in Pennisetum giganteum

PacBio Iso-Seq Improves the Rainbow Trout Genome Annotation and Identifies Alternative Splicing Associated With Economically Important Phenotypes

Comprehensive transcriptome analysis reveals genes potentially involved in isoflavone biosynthesis in Pueraria thomsonii Benth

Comparative transcriptome and metabolome analyses identified the mode of sucrose degradation as a metabolic marker for early vegetative propagation in bulbs of Lycoris

The Plant journal : for cell and molecular biology


Open-source Library PyGDebias: Graph Datasets and Fairness-Aware Graph Mining Algorithms

Fairness in Graph Mining: A Survey


Leaked Mirai Source Code for Research/IoC Development Purposes

N-BaIoT—Network-Based Detection of IoT Botnet Attacks Using Deep Autoencoders

Turning Internet of Things(IoT) into Internet of Vulnerabilities (IoV) : IoT Botnets

CICIoT2023: A Real-Time Dataset and Benchmark for Large-Scale Attacks in IoT Environment

Timely Detection and Mitigation of Stealthy DDoS Attacks Via IoT Networks

IEEE Transactions on Dependable and Secure Computing

AntibIoTic: Protecting IoT Devices Against DDoS Attacks

PROCEEDINGS OF 5TH INTERNATIONAL CONFERENCE IN SOFTWARE ENGINEERING FOR DEFENCE APPLICATIONS

Intelligent and behavioral-based detection of malware in IoT spectrum sensors

International Journal of Information Security

eMUD: Enhanced Manufacturer Usage Description for IoT Botnets Prevention on Home WiFi Routers

The Impact of DoS Attacks onResource-constrained IoT Devices: A Study on the Mirai Attack.

A Highly Secure IoT Firmware Update Mechanism Using Blockchain

On the Detection of Low-Rate Denial of Service Attacks at Transport and Application Layers


CIDEr: Consensus-based Image Description Evaluation

Microsoft COCO Captions: Data Collection and Evaluation Server

SPICE: Semantic Propositional Image Caption Evaluation

CIDEr-R: Robust Consensus-based Image Description Evaluation

Analysis of diversity-accuracy tradeoff in image captioning

Goal-driven text descriptions for images


viralVerify: viral contig verification tool

Metaviral SPAdes: assembly of viruses from metagenomic data

Virotyping and genetic antimicrobial susceptibility testing of porcine ETEC/STEC strains and associated plasmid types

Host interactions of novel Crassvirales species belonging to multiple families infecting bacterial host, Bacteroides cellulosilyticus WH2

bioRxiv : the preprint server for biology

Genome sequencing provides new insights on the distribution of Erwinia amylovora lineages in northern Italy


Joint Embedding of Words and Labels for Text Classification

Label Dependent Attention Model for Disease Risk Prediction Using Multimodal Electronic Health Records

Label-dependent and event-guided interpretable disease risk prediction using EHRs


Software for clustering de novo assembled transcripts and counting overlapping reads

A simple guide to de novo transcriptome assembly and annotation

Transcriptomic analysis of crustacean neuropeptide signaling during the moult cycle in the green shore crab, Carcinus maenas

De novo assembly of Persea americana cv. ‘Hass’ transcriptome during fruit development

Comparative transcriptomic analysis of a wing-dimorphic stonefly reveals candidate wing loss genes

De Novo Transcriptome Sequencing of Rough Lemon Leaves (Citrus jambhiri Lush.) in Response to Plenodomus tracheiphilus Infection

De Novo Transcriptome Sequencing in Kiwifruit (Actinidia chinensis var. deliciosa (A Chev) Liang et Ferguson) and Development of Tissue-Specific Transcriptomic Resources

Transcriptome analysis of lemon leaves (Citrus limon) infected by Plenodomus tracheiphilus reveals the effectiveness of Pseudomonas mediterranea in priming the plant response to mal secco disease

Embryonic gene transcription in the spiny mouse (Acomys cahirinus): an investigtion into the embryonic genome activation

Transcriptional Comparison of New Hybrid Progenies and Clone-Cultivars of Tea (Camellia sinensis L.) Associated to Catechins Content

AlliumDB: a central portal for comparative and functional genomics in Allium


Exploring techniques for estimating safety of machine learning classifiers

AI2: Safety and Robustness Certification of Neural Networks with Abstract Interpretation

Uncertainty Wrappers for Data-Driven Models

SafeML: Safety Monitoring of Machine Learning Classifiers through Statistical Difference Measure

Toward Improving Confidence in Autonomous Vehicle Software: A Study on Traffic Sign Recognition Systems

StaDRe and StaDRo: Reliability and Robustness Estimation of ML-based Forecasting using Statistical Distance Measures

Keep your Distance: Determining Sampling and Distance Thresholds in Machine Learning Monitoring


DeepSurv is a deep learning approach to survival analysis.

DeepSurv: personalized treatment recommender system using a Cox proportional hazards deep neural network

The Application of Deep Learning in Cancer Prognosis Prediction

Deep learning-based survival prediction of oral cancer patients

Deep Survival Machines: Fully Parametric Survival Regression and Representation Learning for Censored Data with Competing Risks

Stacked Autoencoder Based Multi-Omics Data Integration for Cancer Survival Prediction

Deep Learning Approach for Predicting 30 Day Readmissions after Coronary Artery Bypass Graft Surgery

Censored Quantile Regression Neural Networks for Distribution-Free Survival Analysis

Multi-Source Survival Domain Adaptation

Distance-Metric Learning for Personalized Survival Analysis

Bayesian Active Learning for Censored Regression


Formal Verification of Neural Feedback Loops (NFLs)

Robustness Analysis of Neural Networks via Efficient Partitioning with Applications in Control Systems

Efficient Reachability Analysis of Closed-Loop Systems with Neural Network Controllers

Neural Network Verification in Control

Backward Reachability Analysis for Neural Feedback Loops

DRIP: Domain Refinement Iteration With Polytopes for Backward Reachability Analysis of Neural Feedback Loops


R/qtl: A QTL mapping environment

Bioinformatics tools and database resources for systems genetics analysis in mice—a short review and an evaluation of future needs

Phenotyping and Quantitative Trait Locus Analysis for the Limited Transpiration Trait in an Upper-Mid South Soybean Recombinant Inbred Line Population (“Jackson” × “KS4895”): High Throughput Aquaporin Inhibitor Screening

Fourteen Years of R/qtl: Just Barely Sustainable

Covariation of brain and skull shapes as a model to understand the role of crosstalk in development and evolution


TheanoLM is a recurrent neural network language modeling tool implemented using Theano

Proceedings of the Annual Conference of the International Speech Communication Association

Automatic Speech Recognition With Very Large Conversational Finnish and Estonian Vocabularies

IEEE/ACM Transactions on Audio, Speech, and Language Processing

TheanoLM - An Extensible Toolkit for Neural Network Language Modeling

Code-switching Language Modeling With Bilingual Word Embeddings: A Case Study for Egyptian Arabic-English


Neural Surface reconstruction based on Instant-NGP. Efficient and customizable boilerplate for your research projects. Train NeuS in 10min!

Wonder3D: Single Image to 3D using Cross-Domain Diffusion

MVDiffusion++: A Dense High-resolution Multi-view Diffusion Model for
  Single or Sparse-view 3D Object Reconstruction

GigaPose: Fast and Robust Novel Object Pose Estimation via One Correspondence

GSDF: 3DGS Meets SDF for Improved Rendering and Reconstruction

OpenIllumination: A Multi-Illumination Dataset for Inverse Rendering Evaluation on Real Objects

NeuManifold: Neural Watertight Manifold Reconstruction with Efficient and High-Quality Rendering Support

EpiDiff: Enhancing Multi-View Synthesis via Localized Epipolar-Constrained Diffusion

SparseCraft: Few-Shot Neural Reconstruction through Stereopsis Guided Geometric Linearization


Routing Application for Parallel computatIon of Discharge (RAPID)


Bias in Bios: A Case Study of Semantic Representation Bias in a High-Stakes Setting

Proceedings of the Conference on Fairness, Accountability, and Transparency

Null It Out: Guarding Protected Attributes by Iterative Nullspace Projection

CausaLM: Causal Model Explanation Through Counterfactual Language Models

International Conference on Computational Logic

OSCaR: Orthogonal Subspace Correction and Rectification of Biases in Word Embeddings

Benchmarking Intersectional Biases in NLP

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

Co^2PT: Mitigating Bias in Pre-trained Language Models through Counterfactual Contrastive Prompt Tuning


Patch-NetVLAD: Multi-Scale Fusion of Locally-Global Descriptors for Place Recognition

Data-efficient Large Scale Place Recognition with Graded Similarity Supervision

Generalized Contrastive Optimization of Siamese Networks for Place Recognition


DFT optimised crystal structures of inorganic and hybrid halide perovskites

Lattice dynamics and vibrational spectra of the orthorhombic, tetragonal, and cubic phases of methylammonium lead iodide

What Is Moving in Hybrid Halide Perovskite Solar Cells?

Research Update: Relativistic origin of slow electron-hole recombination in hybrid halide perovskite solar cells

Perspective: Theory and simulation of hybrid halide perovskites

Significance of hydrogen bonding and other noncovalent interactions in determining octahedral tilting in the CH3NH3PbI3 hybrid organic-inorganic halide perovskite solar cell semiconductor

Discovery of Lead‐Free Perovskites for High‐Performance Solar Cells via Machine Learning: Ultrabroadband Absorption, Low Radiative Combination, and Enhanced Thermal Conductivities

Stress Effects on Vibrational Spectra of a Cubic Hybrid Perovskite: A Probe of Local Strain

Comparison of different functionals for density functional theory calculations of defects in metal halide perovskites


Implementation of protocols in Falcon

FALCON: Honest-Majority Maliciously Secure Framework for Private Deep Learning

CryptGPU: Fast Privacy-Preserving Machine Learning on the GPU

Bicoptor: Two-round Secure Three-party Non-linear Computation without Preprocessing for Privacy-preserving Machine Learning

Efficient Privacy-Preserving K-Means Clustering from Secret-Sharing-Based Secure Three-Party Computation


Open source library for combining TDA and Machine Learning

PersLay: A Neural Network Layer for Persistence Diagrams and New Graph Topological Signatures

On the Metric Distortion of Embedding Persistence Diagrams into separable Hilbert spaces

Persistence Codebooks for Topological Data Analysis


Usagi is an application to help create mappings between coding systems and the Vocabulary standard concepts.

A curated and standardized adverse drug event resource to accelerate drug safety research

Electronic phenotyping with APHRODITE and the Observational Health Sciences and Informatics (OHDSI) data network.

The natural history of symptomatic COVID-19 during the first wave in Catalonia

Large-scale adverse effects related to treatment evidence standardization (LAERTES): an open scalable system for linking pharmacovigilance evidence sources with clinical data

The natural history of symptomatic COVID-19 in Catalonia, Spain: a multi-state model including 109,367 outpatient diagnoses, 18,019 hospitalisations, and 5,585 COVID-19 deaths among 5,627,520 people

Transforming and evaluating the UK Biobank to the OMOP Common Data Model for COVID-19 research and beyond

Journal of the American Medical Informatics Association : JAMIA

Extract, transform, load framework for the conversion of health databases to OMOP

An OMOP CDM-Based Relational Database of Clinical Research Eligibility Criteria

Studies in health technology and informatics

DQueST: dynamic questionnaire for search of clinical trials

Transformation and Evaluation of the MIMIC Database in the OMOP Common Data Model: Development and Usability Study


LaVie: High-Quality Video Generation with Cascaded Latent Diffusion Models

LAVIE: High-Quality Video Generation with Cascaded Latent Diffusion Models

GAIA: Rethinking Action Quality Assessment for AI-Generated Videos

CoNo: Consistency Noise Injection for Tuning-free Long Video Diffusion


Tools for analyzing aerial point clouds of forest data.


This repo is the home of Romanian Transformers.

The birth of Romanian BERT

RoBERT – A Romanian BERT Model

International Conference on Computational Linguistics

Exploring the Power of Romanian BERT for Dialect Identification

Workshop on NLP for Similar Languages, Varieties and Dialects

Applying Multilingual and Monolingual Transformer-Based Models for Dialect Identification

Deception detection in text and its relation to the cultural dimension of individualism/collectivism


allRank is a framework for training learning-to-rank neural models based on PyTorch.

VD-BERT: A Unified Vision and Dialog Transformer with BERT

NeuralNDCG: Direct Optimisation of a Ranking Metric via Differentiable Relaxation of Sorting

Large-scale Stochastic Optimization of NDCG Surrogates for Deep Learning with Provable Convergence

Enhancing Cross-Sectional Currency Strategies by Context-Aware Learning to Rank with Self-Attention


Guidelines.

Assessing Hidden Risks of LLMs: An Empirical Study on Robustness, Consistency, and Credibility

Shared functional specialization in transformer-based language models and the human brain

High-Precision Biomedical Relation Extraction for Reducing Human Curation Efforts in Industrial Applications

Towards Unsupervised Content Disentanglement in Sentence Representations via Syntactic Roles

Personalized Text Generation with Fine-Grained Linguistic Control

Generalized Optimal Linear Orders

Event and Entity Extraction from Generated Video Captions


A python package for calculating the PESQ.

UnivNet: A Neural Vocoder with Multi-Resolution Spectrogram Discriminators for High-Fidelity Waveform Generation

Unsupervised Speech Enhancement Using Dynamical Variational Autoencoders

Real-time Monaural Speech Enhancement With Short-time Discrete Cosine Transform

FastMVAE2: On Improving and Accelerating the Fast Variational Autoencoder-Based Source Separation Algorithm for Determined Mixtures

StoRIR: Stochastic Room Impulse Response Generation for Audio Data Augmentation

Rethinking the visual cues in audio-visual speaker extraction

FastMVAE: A Fast Optimization Algorithm for the Multichannel Variational Autoencoder Method

FRA-RIR: Fast Random Approximation of the Image-source Method

An Investigation of Time-Frequency Representation Discriminators for
  High-Fidelity Vocoder

FastFit: Towards Real-Time Iterative Neural Vocoder by Replacing U-Net Encoder With Multiple STFTs


Implementation of Positional Burrows-Wheeler Transform for genetic data

Gene discovery and polygenic prediction from a genome-wide association study of educational attainment in 1.1 million individuals

Accurate, scalable and integrative haplotype estimation

Assessment of Imputation Quality: Comparison of Phasing and Imputation Algorithms in Real Data

Integrative haplotype estimation with sub-linear complexity


Language Is Not All You Need: Aligning Perception with Language Models

Grounding Language Models to Images for Multimodal Inputs and Outputs

Generative Pretraining in Multimodality

The VQA-Machine: Learning How to Use Existing Vision Algorithms to Answer New Questions

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

Language Models are General-Purpose Interfaces

Linearly Mapping from Image to Text Space

LaKo: Knowledge-driven Visual Question Answering via Late Knowledge-to-Text Injection

Vision Skills Needed to Answer Visual Questions

Proceedings of the ACM on Human-Computer Interaction

VQA-MHUG: A Gaze Dataset to Study Multimodal Neural Attention in Visual Question Answering


Fast Whole-Genome Similarity (ANI) Estimation

High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries

The antiSMASH database version 2: a comprehensive resource on secondary metabolite biosynthetic gene clusters

Gemmatimonas groenlandica sp. nov. Is an Aerobic Anoxygenic Phototroph in the Phylum Gemmatimonadetes

Aerobic Denitrification and Heterotrophic Sulfur Oxidation in the Genus Halomonas Revealed by Six Novel Species Characterizations and Genome-Based Analysis

Unravelling the diversity of magnetotactic bacteria through analysis of open genomic databases

Functional and phylogenetic analyses of camel rumen microbiota associated with different lignocellulosic substrates

Maintenance of Sympatric and Allopatric Populations in Free-Living Terrestrial Bacteria

Molecular Epidemiology and Clone Transmission of Carbapenem-Resistant Acinetobacter baumannii in ICU Rooms

Prevalence and Distribution Characteristics of blaKPC-2 and blaNDM-1 Genes in Klebsiella pneumoniae

Legionella Diversity and Spatiotemporal Variation in the Occurrence of Opportunistic Pathogens within a Large Building Water System


Pre-trained Transformers for Arabic Language Understanding and Generation (Arabic BERT, Arabic GPT2, Arabic ELECTRA)

AraBERT: Transformer-based Model for Arabic Language Understanding

AraELECTRA: Pre-Training Text Discriminators for Arabic Language Understanding

AraGPT2: Pre-Trained Transformer for Arabic Language Generation

Pre-training Polish Transformer-based Language Models at Scale

A Survey on Arabic Named Entity Recognition: Past, Recent Advances, and Future Trends

BRUMS at SemEval-2020 Task 12 : Transformer based Multilingual Offensive Language Identification in Social Media

Improving Arabic Diacritization with Regularized Decoding and Adversarial Training

Meeting of the Association for Computational Linguistics

Combining Context-Free and Contextualized Representations for Arabic Sarcasm Detection and Sentiment Identification

JABER and SABER: Junior and Senior Arabic BERt

Does Manipulating Tokenization Aid Cross-Lingual Transfer? A Study on POS Tagging for Non-Standardized Languages


A PyTorch Graph Neural Network Library

Learning to Represent Programs with Graphs

Predicting multicellular function through multi-layer tissue networks

Structured Neural Summarization

Typilus: neural type hints

Programming Language Design and Implementation

JEMMA: An extensible Java dataset for ML4Code applications


The Places365-CNNs for Scene Classification

Piggyback: Adapting a Single Network to Multiple Tasks by Learning to Mask Weights

Building instance classification using street view images

Isprs Journal of Photogrammetry and Remote Sensing

HybridNet: Classification and Reconstruction Cooperation for Semi-Supervised Learning

Piggyback: Adding Multiple Tasks to a Single, Fixed Network by Learning to Mask

Transformation Consistency Regularization- A Semi-Supervised Paradigm for Image-to-Image Translation

Benchmarking unsupervised near-duplicate image detection

Focus! Rating XAI Methods and Finding Biases

An audiovisual and contextual approach for categorical and continuous emotion recognition in-the-wild

Large Scale Organization and Inference of an Imagery Dataset for Public Safety

IEEE High Performance Extreme Computing Conference

Exploiting Vulnerabilities of Deep Neural Networks for Privacy Protection


SqueezeNet: AlexNet-level accuracy with 50x fewer parameters and <0.5MB model size

SqueezeDet: Unified, Small, Low Power Fully Convolutional Neural Networks for Real-Time Object Detection for Autonomous Driving

Ristretto: Hardware-Oriented Approximation of Convolutional Neural Networks

Deep Learning on Mobile Devices - A Review

Zero-Shot Deep Domain Adaptation

Accelerator-Aware Pruning for Convolutional Neural Networks

IEEE Transactions on Circuits and Systems for Video Technology

ZynqNet: An FPGA-Accelerated Embedded Convolutional Neural Network

ShiftCNN: Generalized Low-Precision Architecture for Inference of Convolutional Neural Networks

Impact of Thermal Throttling on Long-Term Visual Inference in a CPU-based Edge Device

Exploring the Design Space of Deep Convolutional Neural Networks at Large Scale


LectureBank Dataset

What Should I Learn First: Introducing LectureBank for NLP Education and Prerequisite Chain Learning

R-VGAE: Relational-variational Graph Autoencoder for Unsupervised Prerequisite Chain Learning

Heterogeneous Graph Neural Networks for Concept Prerequisite Relation Learning in Educational Data

North American Chapter of the Association for Computational Linguistics

CLICKER: A Computational LInguistics Classification Scheme for Educational Resources


:sunflower: pyet is a Python package to estimate reference and potential evaporation.

PyEt - a Python package to estimate potential and reference evapotranspiration


Tensor Robust Principal Component Analysis with a New Tensor Nuclear Norm

Bayesian CP Factorization of Incomplete Tensors with Automatic Rank Determination

IEEE transactions on pattern analysis and machine intelligence

Tensor Ring Decomposition


Gene set scoring for single-cell data

UCell: Robust and scalable single-cell gene signature scoring

Cancer cell plasticity and MHC-II–mediated immune tolerance promote breast cancer metastasis to lymph nodes

Combining single-cell sequencing and spatial transcriptome sequencing to identify exosome-related features of glioblastoma and constructing a prognostic model to identify BARD1 as a potential therapeutic target for GBM patients

Transcriptome network analysis implicates CX3CR1-positive type 3 dendritic cells in non-infectious uveitis


lamtram: A toolkit for neural language and translation modeling

A Syntactic Neural Model for General-Purpose Code Generation

DyNet: The Dynamic Neural Network Toolkit

TRANX: A Transition-based Neural Abstract Syntax Parser for Semantic Parsing and Code Generation

Correcting Length Bias in Neural Machine Translation

Stronger Baselines for Trustable Results in Neural Machine Translation

Neural Lattice-to-Sequence Models for Uncertain Inputs

Neural Reranking Improves Subjective Quality of Machine Translation: NAIST at WAT2015

Learning to Generate Corrective Patches using Neural Machine Translation

A User-Study on Online Adaptation of Neural Machine Translation to Human Post-Edits

Lexicons and Minimum Risk Training for Neural Machine Translation: NAIST-CMU at WAT2016


A pytorch implementation of Reading Wikipedia to Answer Open-Domain Questions.

Simple Recurrent Units for Highly Parallelizable Recurrence

Pathologies of Neural Models Make Interpretations Difficult

Training RNNs as Fast as CNNs

Conference on Empirical Methods in Natural Language Processing

Improving the Robustness of Question Answering Systems to Question Paraphrasing

BiPaR: A Bilingual Parallel Dataset for Multilingual and Cross-lingual Reading Comprehension on Novels

Long Short-Term Memory as a Dynamically Computed Element-wise Weighted Sum

Towards Inference-Oriented Reading Comprehension: ParallelQA

FastFusionNet: New State-of-the-Art for DAWNBench SQuAD

Assessing Back-Translation as a Corpus Generation Strategy for non-English Tasks: A Study in Reading Comprehension and Word Sense Disambiguation


A Bayesian model for compositional single-cell data analysis

scCODA is a Bayesian model for compositional single-cell data analysis

Glutaminase inhibition in combination with azacytidine in myelodysplastic syndromes: Clinical efficacy and correlative analyses


[ICLR2021] Unlearnable Examples: Making Personal Data Unexploitable

A Survey of Machine Unlearning

Availability Attacks Create Shortcuts

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

Image Shortcut Squeezing: Countering Perturbative Availability Poisons with Compression

Learning the Unlearnable: Adversarial Augmentations Suppress Unlearnable Example Attacks

Indiscriminate Poisoning Attacks Are Shortcuts.

Fooling Adversarial Training with Inducing Noise

Indiscriminate Data Poisoning Attacks on Pre-trained Feature Extractors


Scientific journal and sci-fi themed color palettes for ggplot2

Multi-omics data integration using ratio-based quantitative profiling with Quartet reference materials

Zenodo (CERN European Organization for Nuclear Research)

PCR Assay for Rapid Taxonomic Differentiation of Virulent Staphylococcus aureus and Klebsiella pneumoniae Bacteriophages

International journal of molecular sciences

BioLadder: A bioinformatic platform primarily focused on proteomic data analysis

Synergistic effect of short- and long-read sequencing on functional meta-omics


Code for the paper URLNet - Learning a URL Representation with Deep Learning for Malicious URL Detection

URLNet: Learning a URL Representation with Deep Learning for Malicious URL Detection

Combining Long-Term Recurrent Convolutional and Graph Convolutional Networks to Detect Phishing Sites Using URL and HTML

Profiler: Profile-Based Model to Detect Phishing Emails

PhishMatch: A Layered Approach for Effective Detection of Phishing URLs

PhishRepo: A Seamless Collection of Phishing Data to Fill a Research Gap in the Phishing Domain

International Journal of Advanced Computer Science and Applications


Pytorch implementation of convolutional neural network visualization techniques

Interpretable classification of Alzheimer’s disease pathologies with a convolutional neural network pipeline

Intriguing Findings of Frequency Selection for Image Deblurring

Use of a Capsule Network to Detect Fake Images and Videos

Self-Supervised Learning Disentangled Group Representation as Feature

Explainable AI for Bioinformatics: Methods, Tools, and Applications

Explaining Classifiers using Adversarial Perturbations on the Perceptual Ball

A Double Siamese Framework for Differential Morphing Attack Detection

Exploring the potential of transfer learning for metamodels of heterogeneous material deformation

TorchEsegeta: Framework for Interpretability and Explainability of Image-based Deep Learning Models

Semiotic Aggregation in Deep Learning


[EMNLP 2021] Improving and Simplifying Pattern Exploiting Training

It's Not Just Size That Matters: Small Language Models Are Also Few-Shot Learners

True Few-Shot Learning with Language Models


CarveMe: genome-scale metabolic model reconstruction

Fast automated reconstruction of genome-scale metabolic models for microbial species and communities

A systematic assessment of current genome-scale metabolic reconstruction tools

Constraint-Based Reconstruction and Analyses of Metabolic Models: Open-Source Python Tools and Applications to Cancer

A conserved interdomain microbial network underpins cadaver decomposition despite environmental variables

State-of the-Art Constraint-Based Modeling of Microbial Metabolism: From Basics to Context-Specific Models with a Focus on Methanotrophs


Implementation of topic models based on neural network approaches.

Variational Deep Embedding: An Unsupervised and Generative Approach to Clustering

Semi-Supervised Learning with Context-Conditional Generative Adversarial Networks

Neural Topic Modeling with Bidirectional Adversarial Training

Topic Modeling in Embedding Spaces

Neural Attention-Aware Hierarchical Topic Model


python wrapper for rubberband

A Bi-directional Transformer for Musical Chord Recognition

Mustango: Toward Controllable Text-to-Music Generation

MediumVC: Any-to-any voice conversion using synthetic specific-speaker speeches as intermedium features

DawDreamer: Bridging the Gap Between Digital Audio Workstations and Python Interfaces


PyTorch library to facilitate development and standardized evaluation of neural network pruning methods.

What is the State of Neural Network Pruning?

Why is the State of Neural Network Pruning so Confusing? On the Fairness, Comparison Setup, and Trainability in Network Pruning

How I Learned to Stop Worrying and Love Retraining

Compression-aware Training of Neural Networks using Frank-Wolfe

Identifying Equivalent Training Dynamics


Ranger - a synergistic optimizer using RAdam (Rectified Adam), Gradient Centralization and LookAhead in one codebase

Gradient Centralization: A New Optimization Technique for Deep Neural Networks

Descending through a Crowded Valley - Benchmarking Deep Learning Optimizers

Calibrating the Adaptive Learning Rate to Improve Convergence of ADAM

Sem2NeRF: Converting Single-View Semantic Masks to Neural Radiance Fields

Learning Curves for Analysis of Deep Networks

Classification of Tennis Shots with a Neural Network Approach

Extending the SAGA Survey (xSAGA). I. Satellite Radial Profiles as a Function of Host-galaxy Properties

Target Selection and Sample Characterization for the DESI LOW-Z Secondary Target Program

Using interpretable deep learning to model cancer dependencies

On Improving an Already Competitive Segmentation Algorithm for the Cell Tracking Challenge - Lessons Learned


Multilingual Automatic Speech Recognition with word-level timestamps and confidence

WhisperX: Time-Accurate Speech Transcription of Long-Form Audio

Evaluating Multilingual Speech Translation under Realistic Conditions with Resegmentation and Terminology

Proceedings of the 20th International Conference on Spoken Language Translation (IWSLT 2023)

ComSL: A Composite Speech-Language Model for End-to-End Speech-to-Text Translation

Towards Multimodal Video Paragraph Captioning Models Robust to Missing
  Modality

Learning Co-Speech Gesture for Multimodal Aphasia Type Detection

The Claire French Dialogue Dataset

SpokesBiz -- an Open Corpus of Conversational Polish

Vibravox: A Dataset of French Speech Captured with Body-conduction Audio Sensors


Repo for BenTsao [original name: HuaTuo (华驼)], Instruction-tuning Large Language Models with Chinese Medical Knowledge. 本草（原名：华驼）模型仓库，基于中文医学知识的大语言模型指令微调

HuaTuo: Tuning LLaMA Model with Chinese Medical Knowledge

HuatuoGPT, towards Taming Language Model to Be a Doctor

Knowledge-tuning Large Language Models with Structured Medical Knowledge Bases for Reliable Response Generation in Chinese

MedChatZH: a Better Medical Adviser Learns from Better Instructions

The CALLA Dataset: Probing LLMs' Interactive Knowledge Acquisition from Chinese Medical Literature

Large Language Models for Medicine: A Survey


GOOD: A Graph Out-of-Distribution Benchmark [NeurIPS 2022 Datasets and Benchmarks]

Improving Out-of-Distribution Robustness via Selective Augmentation

Interpretable and Generalizable Graph Learning via Stochastic Attention Mechanism

Learning Causally Invariant Representations for Out-of-Distribution Generalization on Graphs

Identifying Semantic Component for Robust Molecular Property Prediction

GraphMETRO: Mitigating Complex Distribution Shifts in GNNs via Mixture of Aligned Experts

Survey on Trustworthy Graph Neural Networks: From A Causal Perspective

MARIO: Model Agnostic Recipe for Improving OOD Generalization of Graph Contrastive Learning


Hyper optimized contraction trees for large tensor networks and einsums

TensorCircuit: a Quantum Software Framework for the NISQ Era

Jet: Fast quantum circuit simulations with parallel task-based tensor-network contraction

HybridQ: A Hybrid Simulator for Quantum Circuits

Simulation Paths for Quantum Circuit Simulation With Decision Diagrams What to Learn From Tensor Networks, and What Not

IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems

Tensor Network Circuit Simulation at Exascale


A tiny library for coding with large language models.

Chain-of-Thought Prompting Elicits Reasoning in Large Language Models

PAL: Program-aided Language Models

Bridging the Novice-Expert Gap via Models of Decision-Making: A Case Study on Remediating Math Mistakes

Tree Prompting: Efficient Task Adaptation without Fine-Tuning

A Taxonomy of Foundation Model based Systems through the Lens of Software Architecture

Backtracing: Retrieving the Cause of the Query

From Decoding to Meta-Generation: Inference-time Algorithms for Large Language Models


CVPR2023 - Activating More Pixels in Image Super-Resolution Transformer Arxiv - HAT: Hybrid Attention Transformer for Image Restoration

CMISR: Circular Medical Image Super-Resolution


Extended Isolation Forest for Anomaly Detection

Extended Isolation Forest

IEEE Transactions on Knowledge and Data Engineering

Random Partitioning Forest for Point-Wise and Collective Anomaly Detection—Application to Network Intrusion Detection

IEEE Transactions on Information Forensics and Security

Interpretable, Multidimensional, Multimodal Anomaly Detection with Negative Sampling for Detection of Device Failure

Revisiting randomized choices in isolation forests

Average Localised Proximity: A new data descriptor with good default one-class classification performance

Anomaly Detection Based on Isolation Mechanisms: A Survey


Classification models trained on ImageNet. Keras.

Model Patching: Closing the Subgroup Performance Gap with Data Augmentation

Impact of Thermal Throttling on Long-Term Visual Inference in a CPU-based Edge Device

Interpretable Multi-Step Reasoning with Knowledge Extraction on Complex Healthcare Question Answering

Using deep learning to detect patients at risk for prostate cancer despite benign biopsies

CALTeC: Content-Adaptive Linear Tensor Completion for Collaborative Intelligence

Privacy in Practice: Private COVID-19 Detection in X-Ray Images

Progressive Stochastic Binarization of Deep Networks


Imitation learning algorithms

Soft Actor-Critic: Off-Policy Maximum Entropy Deep Reinforcement Learning with a Stochastic Actor

Generative Adversarial Imitation Learning

Soft Actor-Critic Algorithms and Applications

Learning Robust Rewards with Adversarial Inverse Reinforcement Learning

Discriminator-Actor-Critic: Addressing Sample Inefficiency and Reward Bias in Adversarial Imitation Learning

SQIL: Imitation Learning via Reinforcement Learning with Sparse Rewards

A Divergence Minimization Perspective on Imitation Learning Methods

Primal Wasserstein Imitation Learning

Disagreement-Regularized Imitation Learning

International Conference on Learning Representations

What Matters for Adversarial Imitation Learning?


An R package for data analysis in microbial community ecology

microeco: an R package for data mining in microbial community ecology

Patterns and Drivers of nirK-Type and nirS-Type Denitrifier Community Assembly along an Elevation Gradient

Transfer of Human Microbiome to Drosophila Gut Model

Effects of Different Farming Modes on Salmo trutta fario Growth and Intestinal Microbial Community


A python package for benchmarking interpretability techniques on Transformers.

Deep Inside Convolutional Networks: Visualising Image Classification Models and Saliency Maps

Discretized Integrated Gradients for Explaining Language Models

ferret: a Framework for Benchmarking Explainers on Transformers


Quality control for MinION sequencing data

NanoPack: visualizing and processing long-read sequencing data

MinIONQC: fast and simple quality control for MinION sequencing data

Genome assembly and characterization of a complex zfBED-NLR gene-containing disease resistance locus in Carolina Gold Select rice with Nanopore sequencing

Bioinformatic Tools for NGS-Based Metagenomics to Improve the Clinical Diagnosis of Emerging, Re-Emerging and New Viruses

A comprehensive toolkit to enable MinION sequencing in any laboratory

Clinical and molecular features of NDM-producing Acinetobacter baumannii in a multicenter study in Israel

Annals of clinical microbiology and antimicrobials

Nanopore sequencing data analysis using Microsoft Azure cloud computing service


Graph Embedding Evaluation / Code and Datasets for  "Graph Embedding on Biomedical Networks: Methods, Applications, and Evaluations"  (Bioinformatics 2020)

Graph embedding on biomedical networks: methods, applications and evaluations

Building the graph of medicine from millions of clinical narratives

Node Classification on Graphs with Few-Shot Novel Labels via Meta Transformed Network Embedding

A Comprehensive Analytical Survey on Unsupervised and Semi-Supervised Graph Representation Learning Methods

Extracting functional insights from loss-of-function screens using deep link prediction


The official repository of "AbdomenCT-1K: Is Abdominal Organ Segmentation A Solved Problem?"

AbdomenCT-1K: Is Abdominal Organ Segmentation a Solved Problem?

MedShapeNet -- A Large-Scale Dataset of 3D Medical Shapes for Computer Vision

SegVol: Universal and Interactive Volumetric Medical Image Segmentation

One Model to Rule them All: Towards Universal Segmentation for Medical Images with Text Prompts

Neural Annotation Refinement: Development of a New 3D Dataset for Adrenal Gland Analysis

Abdominal organ segmentation via deep diffeomorphic mesh deformations

Towards liver segmentation in the wild via contrastive distillation

International journal of computer assisted radiology and surgery

UFPS: A unified framework for partially annotated federated segmentation in heterogeneous data distribution


PyTorch implementation of SENet

Squeeze-and-Excitation Networks

Mixed High-Order Attention Network for Person Re-Identification

Rethinking the Pruning Criteria for Convolutional Neural Network

Weight Normalization based Quantization for Deep Neural Network Compression

RES-SE-NET: Boosting Performance of Resnets by Enhancing Bridge-connections

EmoFake: An Initial Dataset for Emotion Fake Audio Detection

End-to-End Learning-Based Wireless Image Recognition Using the PyramidNet in Edge Intelligence


[CVPR'24] RLHF-V: Towards Trustworthy MLLMs via Behavior Alignment from Fine-grained Correctional Human Feedback

RLAIF-V: Aligning MLLMs through Open-Source AI Feedback for Super GPT-4V Trustworthiness

Reformulating Vision-Language Foundation Models and Datasets Towards Universal Multimodal Assistants


The repo for "Balanced Multimodal Learning via On-the-fly Gradient Modulation", CVPR 2022 (ORAL)

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


A PyTorch Implementation of Federated Learning http://doi.org/10.5281/zenodo.4321561

Think Locally, Act Globally: Federated Learning with Local and Global Representations

Learning Private Neural Language Modeling with Attentive Aggregation

International Joint Conference on Neural Network

Rethinking Privacy Preserving Deep Learning: How to Evaluate and Thwart Privacy Attacks

Federated Learning for Personalized Humor Recognition


ReAct: Synergizing Reasoning and Acting in Language Models

AgentBoard: An Analytical Evaluation Board of Multi-turn LLM Agents

AgentGym: Evolving Large Language Model-based Agents across Diverse Environments


[CVPR'19 Oral] Deeper and Wider Siamese Networks for Real-Time Visual Tracking

Deep Residual Learning for Image Recognition

Going Deeper with Convolutions

Ocean: Object-aware Anchor-free Tracking

Scale Equivariance Improves Siamese Tracking


Guide to using pre-trained large language models of source code

Evaluating Large Language Models Trained on Code

A systematic evaluation of large language models of code

Proceedings of the 6th ACM SIGPLAN International Symposium on Machine Programming

A Survey on Large Language Models for Software Engineering

A Systematic Evaluation of Large Language Models of Code

Neural Machine Translation for Code Generation

Semi-Instruct: Bridging Natural-Instruct and Self-Instruct for Code
  Large Language Models


Repository for the SCALE-MAMBA MPC system

Outis: Crypto-Assisted Differential Privacy on Untrusted Servers

Secure Multiparty Computation and Trusted Hardware: Examining Adoption Challenges and Opportunities

Privately Connecting Mobility to Infectious Diseases via Applied Cryptography

DLT Based Authentication Framework for Industrial IoT Devices

Analysis and Application of Verifiable Computation Techniques in Blockchain Systems for the Energy Sector

Private Hospital Workflow Optimization via Secure k-Means Clustering

Data Querying and Access Control for Secure Multiparty Computation

Foundations of Programmable Secure Computation

STAR: Statistical Tests with Auditable Results

Incentive Mechanism for Privacy-Preserving Collaborative Routing Using Secure Multi-Party Computation and Blockchain


Rule-based token, sentence segmentation for Russian language

Findings of the The RuATD Shared Task 2022 on Artificial Text Detection in Russian

RuCoLA: Russian Corpus of Linguistic Acceptability

So What's the Plan? Mining Strategic Planning Documents

Razmecheno: Named Entity Recognition from Digital Archive of Diaries "Prozhito"

YerevaNN’s Systems for WMT20 Biomedical Translation Task: The Effect of Fixing Misaligned Sentence Pairs

Empirical Methods in Natural Language Processing


[NeurIPS 2020] Differentiable Augmentation for Data-Efficient GAN Training

Projected GANs Converge Faster

Regularizing Generative Adversarial Networks under Limited Data

Instance-Conditioned GAN

Understanding Pure CLIP Guidance for Voxel Grid NeRF Models

FreGAN: Exploiting Frequency Components for Training GANs under Limited Data

Distilling and Transferring Knowledge via cGAN-generated Samples for Image Classification and Regression

Few-shot Image Generation with Mixup-based Distance Learning

Balanced Training for Sparse GANs

Model Selection for Bayesian Autoencoders


Workflows and interfaces for neuroimaging packages

Nipype: A Flexible, Lightweight and Extensible Neuroimaging Data Processing Framework in Python

A cortical surface-based geodesic distance package for Python

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

On Distribution Shift in Learning-based Bug Detectors

Simultaneous MRI-EEG during a motor imagery neurofeedback task: an open access brain imaging dataset for multi-modal data integration

From the Wet Lab to the Web Lab: A Paradigm Shift in Brain Imaging Research

External Validation of a Convolutional Neural Network for IDH Mutation Prediction

Altered Spontaneous Brain Activity in Subjects With Different Cognitive States of Biologically Defined Alzheimer's Disease: A Surface-Based Functional Brain Imaging Study

PyHRF: A Python Library for the Analysis of fMRI Data Based on Local Estimation of the Hemodynamic Response Function

Proceedings of the 16th Python in Science Conference


Video Face Manipulation Detection Through Ensemble of CNNs

FaceForensics++: Learning to Detect Manipulated Facial Images

Celeb-DF: A Large-scale Challenging Dataset for DeepFake Forensics

The DeepFake Detection Challenge (DFDC) Dataset

Countering Malicious DeepFakes: Survey, Battleground, and Horizon


Model to evaluate emissions of cars


Estimation of a consistent range of adverse health and agricultural effects attributable to air pollution for a GCAM scenario

rfasst: An R tool to estimate air pollution impacts on health and agriculture


T5Patches is a set of tools for fast and targeted editing of generative language models built with T5X.

Fine-Tuning Language Models from Human Preferences

Neural Text Generation with Unlikelihood Training

A Distributional Approach to Controlled Text Generation

Controlling Conditional Language Models without Catastrophic Forgetting


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


Representations of molecules and materials for interpolation of quantum-mechanical simulations via machine learning

Recursive evaluation and iterative contraction of N-body equivariant features.

Efficient implementation of atom-density representations


A simulation tool to explore the spread of COVID-19 and the impact of prevention measures in small communities such as nursing homes, schools or universities via agent-based modeling (ABM).

Early Transmission Dynamics in Wuhan, China, of Novel Coronavirus–Infected Pneumonia

Safety and Efficacy of the BNT162b2 mRNA Covid-19 Vaccine

The Incubation Period of Coronavirus Disease 2019 (COVID-19) From Publicly Reported Confirmed Cases: Estimation and Application

Nowcasting and forecasting the potential domestic and international spread of the 2019-nCoV outbreak originating in Wuhan, China: a modelling study

Safety and efficacy of the ChAdOx1 nCoV-19 vaccine (AZD1222) against SARS-CoV-2: an interim analysis of four randomised controlled trials in Brazil, South Africa, and the UK

Temporal dynamics in viral shedding and transmissibility of COVID-19

Quantifying SARS-CoV-2 transmission suggests epidemic control with digital contact tracing

Incubation Period and Other Epidemiological Characteristics of 2019 Novel Coronavirus Infections with Right Truncation: A Statistical Analysis of Publicly Available Case Data

Incubation period of 2019 novel coronavirus (2019-nCoV) infections among travellers from Wuhan, China, 20–28 January 2020

Epidemiology of Covid-19 in a Long-Term Care Facility in King County, Washington


WorldMaker

Atmospheric Erosion by Giant Impacts onto Terrestrial Planets: A Scaling Law for any Speed, Angle, Mass, and Density

Immediate Origin of the Moon as a Post-impact Satellite

Swift: A modern highly-parallel gravity and smoothed particle hydrodynamics solver for astrophysical and cosmological applications

The effect of pre-impact spin on the Moon-forming collision

Monthly notices of the Royal Astronomical Society

A Recent Impact Origin of Saturn’s Rings and Mid-sized Moons


Configuration Space Covariances for Projected Galaxy 2-Point Statistics

Dark Energy Survey Year 3 results: Cosmology from cosmic shear and robustness to data calibration

Dark Energy Survey Year 3 results: Cosmology from cosmic shear and robustness to modeling uncertainty

Cosmology from clustering, cosmic shear, CMB lensing, and cross correlations: combining Rubin observatory and Simons Observatory

Modeling intrinsic galaxy alignment in the MICE simulation

ShapePipe: A new shape measurement pipeline and weak-lensing application to UNIONS/CFIS data

Accelerating cosmological inference with Gaussian processes and neural networks – an application to LSST Y1 weak lensing and galaxy clustering

A joint Roman Space Telescope and Rubin Observatory synthetic wide-field imaging survey

Monthly Notices of the Royal Astronomical Society

Galaxy clustering in harmonic space from the dark energy survey year 1 data: compatibility with real-space results

Euclid: Covariance of weak lensing pseudo-Cℓ estimates

The catalog-to-cosmology framework for weak lensing and galaxy clustering for LSST


MUSE Python Data Analysis Framework

The MAGPI survey: Science goals, design, observing strategy, early results and theoretical framework

Publications of the Astronomical Society of Australia

A spectacular jet from the bright 244–440 Orion proplyd: The MUSE NFM view

The morphology of the HD 163296 jet as a window on its planetary system

The MAGPI survey: effects of spiral arms on different tracers of the interstellar medium and stellar populations at z ∼ 0.3

The MAGPI survey: evolution of radial trends in star formation activity across cosmic time


This repository contains several applications, demonstrating the Meltdown bug.

Meltdown

SpectreRewind: 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


Spectral energy distribution construction and analysis tools

Retrieval of the d/sdL7+T7.5p Binary SDSS J1416+1348AB

A Reanalysis of the Fundamental Parameters and Age of TRAPPIST-1

The First Retrieval of a Substellar Subdwarf: A Cloud-free SDSS J125637.13–022452.4

A Comparative L-dwarf Sample Exploring the Interplay between Atmospheric Assumptions and Data Properties

Methane emission from a cool brown dwarf


SW components and demos for visual kinship recognition. An emphasis is put on the FIW dataset-- data loaders, benchmarks, results in summary.

Recognizing Families In the Wild (RFIW): The 4th Edition

Survey on the Analysis and Modeling of Visual Kinship: A Decade in the Making

IEEE transactions on pattern analysis and machine intelligence

The 5th Recognizing Families in the Wild Data Challenge: Predicting Kinship from Faces

Automatic Face Understanding: Recognizing Families in Photos


q2 Python package

The Solar Twin Planet Search. I. Fundamental parameters of the stellar sample

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

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

The Solar Twin Planet Search. III. The [Y/Mg] clock: estimating stellar ages of solar-type stars

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

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

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

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

The Solar Twin Planet Search IV. The Sun as a typical rotator and evidence for a new rotational braking law for Sun-like stars


RL-Toolkit: A Research Framework for Robotics

Addressing Function Approximation Error in Actor-Critic Methods

Soft Actor-Critic Algorithms and Applications

Controlling Overestimation Bias with Truncated Mixture of Continuous Distributional Quantile Critics

Smooth Exploration for Robotic Reinforcement Learning

CrossQ: Batch Normalization in Deep Reinforcement Learning for Greater Sample Efficiency and Simplicity


Python code for stellar spectral analysis

Atmospheric stellar parameters for large surveys using FASMA, a new spectral synthesis package

Search for lithium-rich giants in 32 open clusters with high-resolution spectroscopy

FASMA 2.0: A Python package for stellar parameters and chemical abundances

Zenodo (CERN European Organization for Nuclear Research)

TOI-837b is a Young Saturn-sized Exoplanet with a Massive 70
  M_⊕ Core


Transient focused reduction for TESS data

Progenitor and Close-In Circumstellar Medium of Type II Supernova 2020fqv from High-Cadence Photometry and Ultra-Rapid UV Spectroscopy

SN 2021zny: an early flux excess combined with late-time oxygen emission suggests a double white dwarf merger event

TESSreduce: transient focused TESS data reduction pipeline


The Global Environmental Multiscale (GEM) model is a numerical weather prediction model developed by the Meteorological Research Division of Environment and Climate Change Canada.


Repository for Chemical Perception Sampling Tools

Escaping Atom Types in Force Fields Using Direct Chemical Perception

Journal of chemical theory and computation

Toward Learned Chemical Perception of Force Field Typing Rules

Open Force Field Consortium: Escaping atom types using direct chemical perception with SMIRNOFF v0.1

ChemPer: An Open Source Tool for Automatically Generating SMIRKS Patterns


Novel Variance-Component TWAS method for studying complex human diseases with applications to Alzheimer’s dementia

Transcriptome wide association studies: general framework and methods


Ontologies of Linguistic Annotation. Machine-readable tagsets and annotation schemata for more than 100 languages.

Annotation Interoperability for the Post-ISOCat Era

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

The Index Thomisticus Treebank as Linked Data in the LiLa Knowledge Base


BASTA: The BAyesian STellar Algorithm

The BAyesian STellar Algorithm (BASTA): a fitting tool for stellar studies, asteroseismology, exoplanets, and Galactic archaeology

PLATO Hare-and-Hounds exercise: Asteroseismic model fitting of main-sequence solar-like pulsators

A close-in giant planet escapes engulfment by its star

Advanced asteroseismic modelling: breaking the degeneracy between stellar mass and initial helium abundance

Did Kepler-444 have a long-lived convective core?


A power station dictionary that enables mapping between various naming conventions and associated plant metadata


The purpose of Raster Fairy is to transform any kind of 2D point cloud into a regular raster whilst trying to preserve the neighborhood relations that were present in the original cloud. A typical use case is if you have a similarity clustering of images and want to show the images in a regular table structure.

Improving GAN Training via Binarized Representation Entropy (BRE) Regularization

Integrating contrastive learning with dynamic models for reinforcement learning from images

CLOUD: Contrastive Learning of Unsupervised Dynamics

Improving Performance in Colorectal Cancer Histology Decomposition using Deep and Ensemble Machine Learning

A General Framework for Visualization of Sound Collections in Musical Interfaces

Synthesizing Bidirectional Temporal States of Knee Osteoarthritis Radiographs with Cycle-Consistent Generative Adversarial Neural Networks


Ceto is an NGS analysis system put together in a collaboration between the Bartom computational Lab, the Shilatifard lab, and other scientists at Northwestern University.  Scroll down to the bottom of the page for more detail.

Aging is associated with a systemic length-associated transcriptome imbalance

ASXL3 bridges BRD4 to BAP1 complex and governs enhancer activity in small cell lung cancer

Kaposi’s Sarcoma-Associated Herpesvirus Drives a Super-Enhancer-Mediated Survival Gene Expression Program in Primary Effusion Lymphoma

C16orf72/HAPSTR1 is a molecular rheostat in an integrated network of stress response pathways

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

DNA methylation and gene expression signatures are associated with ataxia-telangiectasia phenotype

Placental dysfunction influences fetal monocyte subpopulation gene expression in preterm birth

The HAPSTR2 retrogene buffers stress signaling and resilience in mammals

Vaccination with mycobacterial lipid loaded nanoparticle leads to lipid antigen persistence and memory differentiation of antigen-specific T cells

bioRxiv : the preprint server for biology

Intrauterine Growth Restriction Followed by Oxygen Support Uniquely Interferes with Genetic Regulators of Myelination


MERFISH decoding software

A multimodal cell census and atlas of the mammalian primary motor cortex

Spatially resolved cell atlas of the mouse primary motor cortex by MERFISH

A molecularly defined and spatially resolved cell atlas of the whole mouse brain


brat rapid annotation tool (brat) - for all your textual annotation needs

Pre-train or Annotate? Domain Adaptation with a Constrained Budget

Predicting Critical Path of Labor Dispute Resolution in Legal Domain by Machine Learning Models Based on SHapley Additive exPlanations and Soft Voting Strategy

RTE: A Tool for Annotating Relation Triplets from Text

Arukikata Travelogue Dataset with Geographic Entity Mention, Coreference, and Link Annotation


Lightweight Python implementation of Normative Modelling

Scalable Variational Gaussian Process Classification

Understanding Heterogeneity in Clinical Cohorts Using Normative Models: Beyond Case-Control Studies

Conceptualizing mental disorders as deviations from normative functioning

A normative modelling approach reveals age-atypical cortical thickness in a subgroup of males with autism spectrum disorder

Alpha Waves as a Neuromarker of Autism Spectrum Disorder: The Challenge of Reproducibility and Heterogeneity

Normative modeling of neuroimaging data using generalized additive models of location scale and shape

Morning Plasma Melatonin Differences in Autism: Beyond the Impact of Pineal Gland Volume

The pitfalls of using Gaussian Process Regression for normative modeling


Compare GAN code.

Are GANs Created Equal? A Large-Scale Study

Differentiable Augmentation for Data-Efficient GAN Training

Self-Supervised GANs via Auxiliary Rotation Loss

A Large-scale Study of Representation Learning with the Visual Task Adaptation Benchmark

Consistency Regularization for Generative Adversarial Networks

A Large-Scale Study on Regularization and Normalization in GANs

High-Fidelity Image Generation With Fewer Labels

GS-WGAN: A Gradient-Sanitized Approach for Learning Differentially Private Generators

The GAN Landscape: Losses, Architectures, Regularization, and Normalization

Regularizing Generative Adversarial Networks under Limited Data


A python package that allows you to download PADOVA isochrones directly from their website

StarHorse: a Bayesian tool for determining stellar masses, ages, distances, and extinctions for field stars

From the bulge to the outer disc: StarHorse stellar parameters, distances, and extinctions for stars in APOGEE DR16 and other spectroscopic surveys

A Gaia DR2 Mock Stellar Catalog

Publications of the Astronomical Society of the Pacific

StarHorse results for spectroscopic surveys + Gaia DR3: Chrono-chemical populations in the solar vicinity, the genuine thick disk, and young-alpha rich stars

Uncovering new white dwarf - open cluster associations using Gaia DR3


Code to automatically evaluate and tune parameters for Kimera-VIO pipeline.

Kimera: an Open-Source Library for Real-Time Metric-Semantic Localization and Mapping

Kimera: From SLAM to spatial perception with 3D dynamic scene graphs

3D Dynamic Scene Graphs: Actionable Spatial Perception with Places, Objects, and Humans

Incremental Visual-Inertial 3D Mesh Generation with Structural Regularities


Model of an idealized Moist Atmosphere: Intermediate-complexity General Circulation Model with full radiation

Overcoming set imbalance in data driven parameterization: A case study
  of gravity wave momentum transport


Benchmarks for SyGuS Competition (SyGuS-Comp)

Combining the top-down propagation and bottom-up enumeration for inductive program synthesis

Symposium on Principles of Programming Languages

Inductive program synthesis over noisy data

PROCEEDINGS OF THE 28TH ACM JOINT MEETING ON EUROPEAN SOFTWARE ENGINEERING CONFERENCE AND SYMPOSIUM ON THE FOUNDATIONS OF SOFTWARE ENGINEERING (ESEC/FSE '20)

Toward Neural-Network-Guided Program Synthesis and Verification

Synthesising Programs with Non-trivial Constants

Verifying Solutions to Semantics-Guided Synthesis Problems

SynGuar: guaranteeing generalization in programming by example

PROCEEDINGS OF THE 29TH ACM JOINT MEETING ON EUROPEAN SOFTWARE ENGINEERING CONFERENCE AND SYMPOSIUM ON THE FOUNDATIONS OF SOFTWARE ENGINEERING (ESEC/FSE '21)


Data on energy by Our World in Data

PyPSA-Earth. A new global open energy system optimization model demonstrated in Africa


This is a record of all the Manuscript Monday links!

Evaluating the effect of 3D urban form on neighborhood land surface temperature using Google Street View and geographically weighted regression

Missing emissions from post-monsoon agricultural fires in northwestern India: regional limitations of MODIS burned area and active fire products

Open land-use map: a regional land-use mapping strategy for incorporating OpenStreetMap with earth observations

Characterizing spatial variability in coastal wetland biomass across multiple scales using UAV and satellite imagery

Remote Sensing in Ecology and Conservation

Thresholds of fire response to moisture and fuel load differ between tropical savannas and grasslands across continents

Local-scale agricultural drought monitoring with satellite-based multi-sensor time-series

Mapping spatial variability in shoreline change hotspots from satellite data; a case study in southeast Australia

A spatial pattern analysis of forest loss in the Madre de Dios region, Peru

Big geospatial data analysis for Canada’s Air Pollutant Emissions Inventory (APEI): using google earth engine to estimate particulate matter from exposed mine disturbance areas

Integration of Sentinel optical and radar data for mapping smallholder coffee production systems in Vietnam


Digital Phase-locked-loop software for Locking a Frequency Comb using a Red Pitaya

An open and flexible digital phase-locked loop for optical metrology

A versatile digital approach to laser frequency comb stabilization

Digital Doppler-Cancellation Servo for Ultrastable Optical Frequency Dissemination Over Fiber


Japanese to romaji converter in Python

fugashi, a Tool for Tokenizing Japanese in Python

XTTS: a Massively Multilingual Zero-Shot Text-to-Speech Model

Direct and indirect evidence of compression of word lengths. Zipf's law of abbreviation revisited


Resources and tools for Indian language Natural Language Processing

No Language Left Behind: Scaling Human-Centered Machine Translation

Beyond English-Centric Multilingual Machine Translation

IndicNLPSuite: Monolingual Corpora, Evaluation Benchmarks and Pre-trained Multilingual Language Models for Indian Languages

Samanantar: The Largest Publicly Available Parallel Corpora Collection for 11 Indic Languages

Survey of Low-Resource Machine Translation

Data Diversification: A Simple Strategy For Neural Machine Translation

Online Multilingual Hate Speech Detection: Experimenting with Hindi and English Social Media

IndicTrans2: Towards High-Quality and Accessible Machine Translation Models for all 22 Scheduled Indian Languages

IndicBART: A Pre-trained Model for Indic Natural Language Generation

Findings of the Association for Computational Linguistics: ACL 2022

Revisiting Low Resource Status of Indian Languages in Machine Translation

Proceedings of the 3rd ACM India Joint International Conference on Data Science & Management of Data (8th ACM IKDD CODS & 26th COMAD)


Efficient program for calculating Extended Haplotype Homozygosity (EHH) and Integrated Haplotype Score (iHS)

An ancient viral epidemic involving host coronavirus interacting genes more than 20,000 years ago in East Asia

The Quest for Genes Involved in Adaptation to Climate Change in Ruminant Livestock

Animals : an open access journal from MDPI

TLR1 Variant H305L Associated with Protection from Pulmonary Tuberculosis

Inferring Signatures of Positive Selection in Whole-Genome Sequencing Data: An Overview of Haplotype-Based Methods


Repository containing the open source code of works published at the FBK MT unit.

Diverse Beam Search: Decoding Diverse Solutions from Neural Sequence Models

Over-Generation Cannot Be Rewarded: Length-Adaptive Average Lagging for Simultaneous Speech Translation

Attention as a Guide for Simultaneous Speech Translation

Does Simultaneous Speech Translation need Simultaneous Models?

Efficient yet Competitive Speech Translation: FBK@IWSLT2022

AlignAtt: Using Attention-based Audio-Translation Alignments as a Guide for Simultaneous Speech Translation

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

TransLLaMa: LLM-based Simultaneous Translation System

Dodging the Data Bottleneck: Automatic Subtitling with Automatically Segmented ST Corpora

Direct Speech Translation for Automatic Subtitling


A library for performing constrained optimization in TensorFlow

Fairness in Machine Learning: A Survey

Two-Player Games for Efficient Non-Convex Constrained Optimization

Training Well-Generalizing Classifiers for Fairness Metrics and Other Data-Dependent Constraints

Fairness Evaluation in Text Classification: Machine Learning Practitioner Perspectives of Individual and Group Fairness

Proceedings of the 2023 CHI Conference on Human Factors in Computing Systems

FairGrad: Fairness Aware Gradient Descent

Consistent Multiclass Algorithms for Complex Metrics and Constraints

Optimizing Generalized Rate Metrics through Game Equilibrium

Optimizing Black-box Metrics with Iterative Example Weighting


:chart_with_upwards_trend: Automatically optimise three of Velvet's assembly parameters.

Genomic differentiation among wild cyanophages despite widespread horizontal gene transfer

Comparative transcriptome analysis of lufenuron-resistant and susceptible strains of Spodoptera frugiperda (Lepidoptera: Noctuidae)

Global phylogeography and evolutionary history of Shigella dysenteriae type 1

Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study

Porphyromonas gingivalis Uses Specific Domain Rearrangements and Allelic Exchange to Generate Diversity in Surface Virulence Factors

Lineage-specific plasmid acquisition and the evolution of specialized pathogens in Bacillus thuringiensis and the Bacillus cereus group

The genus Serratia revisited by genomics

Whole-genome sequencing of a quarter-century melioidosis outbreak in temperate Australia uncovers a region of low-prevalence endemicity

Genomic and Phenotypic Analyses of Acinetobacter baumannii Isolates From Three Tertiary Care Hospitals in Thailand

Pre-vaccine serotype composition within a lineage signposts its serotype replacement – a carriage study over 7 years following pneumococcal conjugate vaccine use in the UK