The ultimate list of open data semantic 3D city models

COMBINING VISIBILITY ANALYSIS AND DEEP LEARNING FOR REFINEMENT OF SEMANTIC 3D BUILDING MODELS BY CONFLICT CLASSIFICATION

ISPRS annals of the photogrammetry, remote sensing and spatial information sciences

Open-Source Tool for Transforming CityGML Levels of Detail

TUM-FAÇADE: REVIEWING AND ENRICHING POINT CLOUD BENCHMARKS FOR FAÇADE SEGMENTATION

The international archives of the photogrammetry, remote sensing and spatial information sciences/International archives of the photogrammetry, remote sensing and spatial information sciences

Scan2LoD3: Reconstructing semantic 3D building models at LoD3 using ray casting and Bayesian networks

MLS2LoD3: Refining low LoDs building models with MLS point clouds to
  reconstruct semantic LoD3 building models

Classifying point clouds at the facade-level using geometric features
  and deep learning networks

Reconstructing facade details using MLS point clouds and Bag-of-Words
  approach


High-fidelity performance metrics for generative models in PyTorch

Analyzing and Improving the Image Quality of StyleGAN

Training Generative Adversarial Networks with Limited Data

Improved Precision and Recall Metric for Assessing Generative Models

Q-Diffusion: Quantizing Diffusion Models

Holistic Evaluation of Text-To-Image Models

Frido: Feature Pyramid Diffusion for Complex Scene Image Synthesis

SceneDreamer: Unbounded 3D Scene Generation From 2D Image Collections

Variational Wasserstein gradient flow

Denoising Diffusion Gamma Models

CG-NeRF: Conditional Generative Neural Radiance Fields


The Low Impact version of the Organic Basics website


The Ethereum Smart Contract Fuzzer for Security Vulnerability Detection (ASE 2018)

ContractFuzzer: Fuzzing Smart Contracts for Vulnerability Detection

PROCEEDINGS OF THE 2018 33RD IEEE/ACM INTERNATIONAL CONFERENCE ON AUTOMTED SOFTWARE ENGINEERING (ASE' 18)

Smart Contract Vulnerability Detection Technique: A Survey

Precise Attack Synthesis for Smart Contracts

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


Fully Convolutional DenseNets for semantic segmentation.

Densely Connected Convolutional Networks

The One Hundred Layers Tiramisu: Fully Convolutional DenseNets for Semantic Segmentation

Automated segmentation of colorectal liver metastasis and liver ablation on contrast-enhanced CT images

EDC3: Ensemble of Deep-Classifiers using Class-specific Copula functions to Improve Semantic Image Segmentation

UDBRNet: A novel uncertainty driven boundary refined network for organ at risk segmentation


DROID-SLAM: Deep Visual SLAM for Monocular, Stereo, and RGB-D Cameras

Visual SLAM: What Are the Current Trends and What to Expect?

FusionPortableV2: A Unified Multi-Sensor Dataset for Generalized SLAM
  Across Diverse Platforms and Scalable Environments

Scene Coordinate Reconstruction: Posing of Image Collections via
  Incremental Learning of a Relocalizer


Creative Commons Attribution 4.0 International

This is a repository for sharing papers in the field of empathetic conversational AI. The related source code for each paper is linked if available.

Empathy: A Review of the Concept

The Emerging Study of Positive Empathy

Social and Personality Psychology Compass

Understanding Client Support Strategies to Improve Clinical Outcomes in an Online Mental Health Intervention

PROCEEDINGS OF THE 2020 CHI CONFERENCE ON HUMAN FACTORS IN COMPUTING SYSTEMS (CHI'20)

Exploring the Effects of Technological Writing Assistance for Support Providers in Online Mental Health Community

Constructing Knowledge Graphs of Depression

What If Bots Feel Moods?

PROCEEDINGS OF THE 43RD INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL (SIGIR '20)

I like that you feel my pain, but I love that you feel my joy: Empathy for a partner’s negative versus positive emotions independently affect relationship quality

Journal of Social and Personal Relationships

Assessing Users' Mental Status from their Journaling Behavior through Chatbots

PROCEEDINGS OF THE 20TH ACM INTERNATIONAL CONFERENCE ON INTELLIGENT VIRTUAL AGENTS (ACM IVA 2020)

The Language of Situational Empathy

Proceedings of the ACM on Human-Computer Interaction

Modeling Human Motives and Emotions from Personal Narratives Using External Knowledge And Entity Tracking


A Lem formalization of EVM and some Isabelle/HOL proofs

Security Analysis Methods on Ethereum Smart Contract Vulnerabilities: A Survey

A Concurrent Perspective on Smart Contracts

Smart Contract Vulnerability Detection Technique: A Survey


Binarized Neural Network (BNN) for pytorch

Xcel-RAM: Accelerating Binary Neural Networks in High-Throughput SRAM Compute Arrays

Discretization Based Solutions for Secure Machine Learning Against Adversarial Attacks

Improving Noise Tolerance of Mixed-Signal Neural Networks

Combinatorial Attacks on Binarized Neural Networks

ASTERYX: A model-Agnostic SaT-basEd appRoach for sYmbolic and score-based eXplanations

PROCEEDINGS OF THE 30TH ACM INTERNATIONAL CONFERENCE ON INFORMATION & KNOWLEDGE MANAGEMENT, CIKM 2021

Always-On 674uW @ 4GOP/s Error Resilient Binary Neural Networks with Aggressive SRAM Voltage Scaling on a 22nm IoT End-Node

Mirror Descent View for Neural Network Quantization

Exploring the Back Alleys: Analysing The Robustness of Alternative Neural Network Architectures against Adversarial Attacks


Remove problematic gender bias from word embeddings.

Lipstick on a Pig: Debiasing Methods Cover up Systematic Gender Biases in Word Embeddings But do not Remove Them

Black is to Criminal as Caucasian is to Police: Detecting and Removing Multiclass Bias in Word Embeddings

BOLD: Dataset and Metrics for Measuring Biases in Open-Ended Language Generation

Proceedings of the 2021 ACM Conference on Fairness, Accountability, and Transparency

Evaluating the Underlying Gender Bias in Contextualized Word Embeddings

Equalizing Gender Biases in Neural Machine Translation with Word Embeddings Techniques

Attenuating Bias in Word Vectors

Understanding Undesirable Word Embedding Associations

Gender-preserving Debiasing for Pre-trained Word Embeddings

Two Simple Ways to Learn Individual Fairness Metrics from Data

Debiasing Embeddings for Reduced Gender Bias in Text Classification


Autoregressive Entity Retrieval

BART: Denoising Sequence-to-Sequence Pre-training for Natural Language Generation, Translation, and Comprehension

Multilingual Denoising Pre-training for Neural Machine Translation

Autoregressive Entity Retrieval

Improving Entity Linking by Modeling Latent Relations between Mentions

CM3: A Causal Masked Multimodal Model of the Internet

Neural Entity Linking: A Survey of Models Based on Deep Learning

Multilingual Autoregressive Entity Linking

How can voting mechanisms improve the robustness and generalizability of toponym disambiguation?

TABi: Type-Aware Bi-Encoders for Open-Domain Entity Retrieval

IXA/Cogcomp at SemEval-2023 Task 2: Context-enriched Multilingual Named Entity Recognition using Knowledge Bases


A simulation framework for RLHF and alternatives. Develop your RLHF method without collecting human data.

Training language models to follow instructions with human feedback

Direct Preference Optimization: Your Language Model is Secretly a Reward Model

AlpacaFarm: A Simulation Framework for Methods that Learn from Human Feedback

Exploring the impact of low-rank adaptation on the performance, efficiency, and regularization of RLHF

Testing the Limits of Jailbreaking Defenses with the Purple Problem

Examining User-Friendly and Open-Sourced Large GPT Models: A Survey on Language, Multimodal, and Scientific GPT Models


74.3% MobileNetV3-Large and 67.2% MobileNetV3-Small model on ImageNet

Searching for MobileNetV3

Efficient deep learning architectures for fast identification of bacterial strains in resource-constrained devices

Architectural Neural Backdoors from First Principles


This repo is the codebase for our team to participate in DOTA related competitions, including rotation and horizontal detection.

Towards Multi-class Object Detection in Unconstrained Remote Sensing Imagery

SCRDet++: Detecting Small, Cluttered and Rotated Objects via Instance-Level Feature Denoising and Rotation Loss Smoothing

PolarDet: a fast, more precise detector for rotated target in aerial images

Arbitrary-oriented object detection via dense feature fusion and attention model for remote sensing super-resolution image

Towards Accurate Oriented Object Detection in Aerial Images with Adaptive Multi-level Feature Fusion

ACM Transactions on Multimedia Computing, Communications, and Applications

Multi Angle Rotation Object Detection for Remote Sensing Image Based on Modified Feature Pyramid Networks

MEAD: a Mask-guidEd Anchor-free Detector for oriented aerial object detection

An internal-external optimized convolutional neural network for arbitrary orientated object detection from optical remote sensing images

ROPDet: real-time anchor-free detector based on point set representation for rotating object

Polar Ray: A Single-stage Angle-free Detector for Oriented Object Detection in Aerial Images

PROCEEDINGS OF THE 29TH ACM INTERNATIONAL CONFERENCE ON MULTIMEDIA, MM 2021


Tool for evaluating atmospheric carbon dioxide concentrations as simulated by Earth system models

Seasonal climatology of CO2 across North America from aircraft measurements in the NOAA/ESRL Global Greenhouse Gas Reference Network

Journal of Geophysical Research: Atmospheres


Repository for StripedHyena, a state-of-the-art beyond Transformer architecture

Hyena Hierarchy: Towards Larger Convolutional Language Models

Large Language Models: A Survey

Jamba: A Hybrid Transformer-Mamba Language Model

Simple linear attention language models balance the recall-throughput
  tradeoff

FlashFFTConv: Efficient Convolutions for Long Sequences with Tensor Cores

Laughing Hyena Distillery: Extracting Compact Recurrences From Convolutions

From Words to Numbers: Your Large Language Model Is Secretly A Capable
  Regressor When Given In-Context Examples

Does Transformer Interpretability Transfer to RNNs?

LongLLaVA: Scaling Multi-modal LLMs to 1000 Images Efficiently via a Hybrid Architecture

Just read twice: closing the recall gap for recurrent language models


Raw nanopore signal mapper that enables real-time targeted sequencing

Targeted nanopore sequencing by real-time mapping of raw electrical signal with UNCALLED

Metagenomic Sequencing for Microbial DNA in Human Samples: Emerging Technological Advances

International journal of molecular sciences

Nanopore adaptive sequencing for mixed samples, whole exome capture and targeted panels

RawHash: enabling fast and accurate real-time analysis of raw nanopore signals for large genomes

RawHash2: Accurate and Fast Mapping of Raw Nanopore Signals using a Hash-based Seeding Mechanism

Sigmoni: classification of nanopore signal with a compressed pangenome index

bioRxiv : the preprint server for biology


DES image simulation software: We dug too deeply and too greedily

No galaxy left behind: accurate measurements with the faintest objects in the Dark Energy Survey

Monthly Notices of the Royal Astronomical Society

Mass and galaxy distributions of four massive galaxy clusters from Dark Energy Survey Science Verification data

MAPPING AND SIMULATING SYSTEMATICS DUE TO SPATIALLY VARYING OBSERVING CONDITIONS IN DES SCIENCE VERIFICATION DATA

The Astrophysical Journal Supplement Series

CFHTLenS and RCSLenS: testing photometric redshift distributions using angular cross-correlations with spectroscopic galaxy surveys

Modelling the Transfer Function for the Dark Energy Survey

Dark Energy Survey Year 3 Results: Measuring the Survey Transfer Function with Balrog

Weak lensing magnification in the Dark Energy Survey Science Verification data

Background sky obscuration by cluster galaxies as a source of systematic error for weak lensing

The UV Luminosity Function of Protocluster Galaxies at z ∼ 4: The Bright-end Excess and the Enhanced Star Formation Rate Density

Comparing Dark Energy Survey and HST-CLASH observations of the galaxy cluster RXC J2248.7-4431: implications for stellar mass versus dark matter


Photo-elastic Grain Solver

Photoelastic force measurements in granular materials

Enlightening force chains: a review of photoelasticimetry in granular matter

Betweenness Centrality as Predictor for Forces in Granular Packings

Protocol Dependence and State Variables in the Force-Moment Ensemble.

Rigidity percolation control of the brittle-ductile transition in disordered networks

Forecasting failure locations in 2-dimensional disordered lattices

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

Spongelike Rigid Structures in Frictional Granular Packings

The effect of grain shape and material on the nonlocal rheology of dense granular flows

Machine learning approach to force reconstruction in photoelastic materials

Force distributions in frictional granular media


[NeurIPS 2022] WebShop: Towards Scalable Real-World Web Interaction with Grounded Language Agents

ExpeL: LLM Agents Are Experiential Learners

On the Tool Manipulation Capability of Open-source Large Language Models

Multimodal Web Navigation with Instruction-Finetuned Foundation Models

Lumos: Learning Agents with Unified Data, Modular Design, and Open-Source LLMs

The Generalization Gap in Offline Reinforcement Learning

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


A log-linear time algorithm for constrained changepoint detection

gfpop: An R Package for Univariate Graph-Constrained Change-Point Detection

A greedy graph search algorithm based on changepoint analysis for automatic QRS complex detection


phenosim - A software to simulate phenotypes for testing in genome-wide association studies

GWANN: Implementing deep learning in genome wide association studies

Machine Learning to Advance Human Genome-Wide Association Studies


Gravitational Rigid-body InTegrators, for simulating the coupled dynamics of both spin and orbit.

GRIT: A Package for Structure-Preserving Simulations of Gravitationally Interacting Rigid Bodies

Data-driven discovery of non-Newtonian astronomy via learning non-Euclidean Hamiltonian

Low Spin-Axis Variations of Circumbinary Planets

Were the Obliquities in DI Herculis Excited by an Unseen Tertiary Companion?


BioModelos is a collaborative online system to map species distributions. This repository stores functions to automate the construction of Species Distribution Models (SDM) from databases gathered, managed and curated by The Alexander Von Humboldt Institute and a network of experts in order to be evaluated and refined.

A practical guide to MaxEnt for modeling species' distributions: what it does, and why inputs and settings matter

spThin: an R package for spatial thinning of species occurrence records for use in ecological niche models

The importance of correcting for sampling bias in MaxEnt species distribution models

kuenm: an R package for detailed development of ecological niche models using Maxent

CoordinateCleaner: Standardized cleaning of occurrence records from biological collection databases

ntbox: An r package with graphical user interface for modelling and evaluating multidimensional ecological niches

BioModelos: A collaborative online system to map species distributions


Kefir ameliorates specific microbiota-gut-brain axis impairments in a mouse model relevant to autism spectrum disorder

Gut dysbiosis and inflammatory blood markers precede HIV with limited changes after early seroconversion

Obesity is the main driver of altered gut microbiome functions in the metabolically unhealthy


SingleR: Single-cell RNA-seq cell types Recognition (legacy version)

Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage

A single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors

A blood atlas of COVID-19 defines hallmarks of disease severity and specificity

CancerSCEM: a database of single-cell expression map across various human cancers

Analysis and Visualization of Spatial Transcriptomic Data

Single-cell sequencing of ascites fluid illustrates heterogeneity and therapy-induced evolution during gastric cancer peritoneal metastasis

Absence of Batf3 reveals a new dimension of cell state heterogeneity within conventional dendritic cells

Changes in the Gut Microbiome Contribute to the Development of Behcet’s Disease via Adjuvant Effects

Frontiers in cell and developmental biology

Alveolar macrophages in early stage COPD show functional deviations with properties of impaired immune activation

Profiling mouse cochlear cell maturation using 10× Genomics single-cell transcriptomics


The Expando-Mono-Duo Design Pattern for Text Ranking with Pretrained Sequence-to-Sequence Models

Declarative Experimentation in Information Retrieval using PyTerrier

International Conference on the Theory of Information Retrieval

Evaluating the Robustness of Retrieval Pipelines with Query Variation Generators


Yajta is a extensible library for bytecode probe insertion, built on top of javassist. Its transformations may be applied at load time with an agent or offline.

A journey among Java neutral program variants

Genetic Programming and Evolvable Machines

Java decompiler diversity and its application to meta-decompilation

The Strengths and Behavioral Quirks of Java Bytecode Decompilers

Coverage-Based Debloating for Java Bytecode


A task group  of the "Species Information Interest Group" set to develop a set of vocabulary terms that can be used to describe different aspects of biological species

Comparison of species information TDWG standards from the point of view of the Plinian Core specification

Biodiversity Information Science and Standards

How species interactions are managed in Plinian Core: Status and questions

The Living Atlases Community in Action: Sharing Species Pages through the Atlas of Living Costa Rica

Hemi- and Homonyms in the Big Data Era

Sharing Species Pages in the Atlas of Living Costa Rica using Plinian Core

Plinian Core: The long and winding road


FOSSIL: a software tool for the formal synthesis of lyapunov functions and barrier certificates using neural networks

International Conference on Hybrid Systems: computation and control

A General Verification Framework for Dynamical and Control Models via Certificate Synthesis

Exact Verification of ReLU Neural Control Barrier Functions

Fossil 2.0: Formal Certificate Synthesis for the Verification and Control of Dynamical Models


Representing CP problems as graphs

Learning a SAT Solver from Single-Bit Supervision

Learning to Solve NP-Complete Problems - A Graph Neural Network for Decision TSP

Graph Colouring Meets Deep Learning: Effective Graph Neural Network Models for Combinatorial Problems

Towards a Generic Representation of Combinatorial Problems for Learning-Based Approaches


R Package for Scraping and Aggregating NFL Data

nflWAR: a reproducible method for offensive player evaluation in football

Big ideas in sports analytics and statistical tools for their investigation

Empirical Prediction of Turnovers in NFL Football

A Reinforcement Learning Based Approach to Play Calling in Football

Simulation-based decision making in the NFL using NFLSimulatoR


Learning Lightweight Lane Detection CNNs by Self Attention Distillation (ICCV 2019)

ENet: A Deep Neural Network Architecture for Real-Time Semantic Segmentation

Spatial As Deep: Spatial CNN for Traffic Scene Understanding

PolyLaneNet: Lane Estimation via Deep Polynomial Regression

Lane Detection in Low-light Conditions Using an Efficient Data Enhancement : Light Conditions Style Transfer


BabyBear: Cheap inference triage for expensive language models

Neural Embeddings for Text

Does Summary Evaluation Survive Translation to Other Languages?

Linear Cross-Lingual Mapping of Sentence Embeddings


Mapping Alternative Splicing Events to pRoteins

Placenta Transcriptome Profiling in Intrauterine Growth Restriction (IUGR)

PRMT5 regulates ATF4 transcript splicing and oxidative stress response

The RNA-Binding Protein HuD Regulates Alternative Splicing and Alternative Polyadenylation in the Mouse Neocortex

Transcriptome, Spliceosome and Editome Expression Patterns of the Porcine Endometrium in Response to a Single Subclinical Dose of Salmonella Enteritidis Lipopolysaccharide


Mapping of OPENQASM programs to IBM QX satisfying the architectural constraints

t|ket⟩: a retargetable compiler for NISQ devices

On the qubit routing problem

Optimality Study of Existing Quantum Computing Layout Synthesis Tools

Efficient quantum gate decomposition via adaptive circuit compression

Using Spectral Graph Theory to Map Qubits onto Connectivity-limited Devices

String Abstractions for Qubit Mapping

Development of a multi-technology, template-based quantum circuits compilation toolchain

The promising path of evolutionary optimization to avoid barren plateaus


Simple image captioning model

Prefix-Tuning: Optimizing Continuous Prompts for Generation

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

Unified Vision-Language Pre-Training for Image Captioning and VQA

ClipCap: CLIP Prefix for Image Captioning

A-OKVQA: A Benchmark for Visual Question Answering using World Knowledge

The Creativity of Text-to-Image Generation

Delving into Out-of-Distribution Detection with Vision-Language Representations

Discovering and Mitigating Visual Biases through Keyword Explanation

Semi-Supervised Domain Generalization for Object Detection via Language-Guided Feature Alignment


a collection of remote climate data accessed via intake cached to disk


The Simons Observatory: Science goals and forecasts

Journal of Cosmology and Astroparticle Physics

Strong Bound on Canonical Ultralight Axion Dark Matter from the Lyman-Alpha Forest

Constraints on dark matter scenarios from measurements of the galaxy luminosity function at high redshifts

Future CMB tests of dark matter: Ultralight axions and massive neutrinos

Ultra-light axions and the S_8 tension: joint constraints from the cosmic microwave background and galaxy clustering

Solitons in the dark: First approach to non-linear structure formation with fuzzy dark matter

Intensity mapping as a probe of axion dark matter

Implications of Milky Way substructures for the nature of dark matter

General framework for cosmological dark matter bounds using N-body
  simulations

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


A spherical convolutional neural network for cosmology (TFv2).

DeepSphere: Efficient spherical convolutional neural network with HEALPix sampling for cosmological applications

DeepSphere: a graph-based spherical CNN

DeepSphere: towards an equivariant graph-based spherical CNN

A tomographic spherical mass map emulator of the KiDS-1000 survey using conditional generative adversarial networks


Vega-MT: The JD Explore Academy Translation System for WMT22

An Automatic Evaluation of the WMT22 General Machine Translation Task


code and docs for my EMNLP paper "DeepPath: A Reinforcement Learning Method for Knowledge Graph Reasoning"

Deep Learning on Graphs: A Survey

Variational Knowledge Graph Reasoning

M-Walk: Learning to Walk over Graphs using Monte Carlo Tree Search

DAPath: Distance-aware knowledge graph reasoning based on deep reinforcement learning

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

Reinforcement learning on graphs: A survey

A Framework to Quantify Approximate Simulation on Graph Data

Memory-Enhanced Knowledge Reasoning with Reinforcement Learning


SpuCo is a Python package developed to further research to address spurious correlations.

Towards Mitigating Spurious Correlations in the Wild: A Benchmark and a more Realistic Dataset

Invariant Learning via Probability of Sufficient and Necessary Causes


mmCIF support for hybrid/integrative models

New system for archiving integrative structures

Acta crystallographica. Section D, Structural biology

RCSB Protein Data Bank: supporting research and education worldwide through explorations of experimentally determined and computationally predicted atomic level 3D biostructures

IHMCIF: An Extension of the PDBx/mmCIF Data Standard for Integrative Structure Determination Methods.


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

Monthly notices of the Royal Astronomical Society

Global 3D radiation hydrodynamic simulations of proto-Jupiter’s convective envelope

Constraining the turbulence and the dust disk in IM Lup: Onset of planetesimal formation

Collisional evolution of dust and water ice in protoplanetary discs during and after an accretion outburst

Azimuthal temperature variations in ISO-Oph2 from multi-frequency ALMA observations


Prompt-to-Prompt Image Editing with Cross Attention Control

Free-Bloom: Zero-Shot Text-to-Video Generator with LLM Director and LDM Animator

Concept Sliders: LoRA Adaptors for Precise Control in Diffusion Models

CycleNet: Rethinking Cycle Consistency in Text-Guided Diffusion for Image Manipulation

MDP: A Generalized Framework for Text-Guided Image Editing by Manipulating the Diffusion Path

Get What You Want, Not What You Don't: Image Content Suppression for
  Text-to-Image Diffusion Models

Beyond First-Order Tweedie: Solving Inverse Problems using Latent Diffusion

PFB-Diff: Progressive Feature Blending Diffusion for Text-driven Image Editing

Continuous, Subject-Specific Attribute Control in T2I Models by
  Identifying Semantic Directions

MAG-Edit: Localized Image Editing in Complex Scenarios via Mask-Based Attention-Adjusted Guidance


Assign taxonomic ranks based on evolutionary divergence.

A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.)

Selection of representative genomes for 24,706 bacterial and archaeal species clusters provide a complete genome-based taxonomy

Recoding of stop codons expands the metabolic potential of two novel Asgardarchaeota lineages

Printing Microbial Dark Matter: Using Single Cell Dispensing and Genomics to Investigate the Patescibacteria/Candidate Phyla Radiation

A genome-scale phylogeny of Fungi; insights into early evolution, radiations, and the relationship between taxonomy and phylogeny

Genomic insights into the Archaea inhabiting an Australian radioactive legacy site

A long-awaited taxogenomic investigation of the family Halomonadaceae

Taxonomic Re-Classification and Expansion of the Phylum Chloroflexota Based on over 5000 Genomes and Metagenome-Assembled Genomes

In Situ Genomics and Transcriptomics of SAR202 Subclusters Revealed Subtle Distinct Activities in Deep-Sea Water


Multi-step Off-policy Learning Without Importance Sampling Ratios

Investigating practical linear temporal difference learning

Proximal Gradient Temporal Difference Learning: Stable Reinforcement Learning with Polynomial Sample Complexity

An Empirical Comparison of Off-policy Prediction Learning Algorithms in the Four Rooms Environment

An Empirical Comparison of Off-policy Prediction Learning Algorithms on the Collision Task


SELEN: a program for solving the "Sea Level Equation".


Python interface for a 2D optimal transport / Monge Ampère solver using Laguerre diagrams

Convergence of a Newton algorithm for semi-discrete optimal transport

A Lagrangian scheme for the incompressible Euler equation using optimal transport

A Newton algorithm for semi-discrete optimal transport with storage fees

Second-Order Models for Optimal Transport and Cubic Splines on the Wasserstein Space

Asymptotic distribution and convergence rates of stochastic algorithms for entropic optimal transportation between probability measures


Official repository for the paper "Instance-Conditioned GAN" by Arantxa Casanova, Marlene Careil, Jakob Verbeek, Michał Drożdżal, Adriana Romero-Soriano.

Semi-Parametric Neural Image Synthesis

Instance-Conditioned GAN

Controllable Image Generation via Collage Representations

Instance-Conditioned GAN Data Augmentation for Representation Learning

Large-Scale Public Data Improves Differentially Private Image Generation Quality


Image segmentation of cultivated land


Charting Brain Growth and Aging at High Spatial Precision

Evidence for embracing normative modeling

Using normative models pre-trained on cross-sectional data to evaluate longitudinal changes in neuroimaging data

Personalising Alzheimer’s Disease progression using brain atrophy markers

medRxiv : the preprint server for health sciences

Amygdala Volume is Associated with ADHD Risk and Severity Beyond Comorbidities in Adolescents: Clinical Testing of Brain Chart Reference Standards


Repository for the pyCloudy package

Two new nova shells associated with V4362 Sagittarii and DO Aquilae

Nonthermal element abundances at astrophysical shocks

Near-infrared emission line diagnostics for AGN from the local Universe to z ∼ 3

Evidence of extreme ionization conditions and low metallicity in
  GHZ2/GLASS-z12 from a combined analysis of NIRSpec and MIRI observations


Source code for the Last Millennium Reanalysis (LMR) project

Last Millennium Reanalysis with an expanded proxy database and seasonal proxy modeling

Greenland temperature and precipitation over the last 20,000 years using data assimilation

cfr (v2024.1.26): a Python package for climate field reconstruction


Overview of the Low Altitude Disaster Imagery (LADI) Dataset

TRECVID 2020: A comprehensive campaign for evaluating video retrieval tasks across multiple application domains

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

IEEE High Performance Extreme Computing Conference

Window detection in facade images for risk assessment in tunneling

An overview on the evaluated video retrieval tasks at TRECVID 2022

Outreach to Define a Public Safety Communications Model For Broadband Cellular Video

IEEE International Conference on Technologies for Homeland Security


A user-friendly python package for computing and plotting machine learning explainability output.

A Simple and Effective Model-Based Variable Importance Measure

Quantifying Model Complexity via Functional Decomposition for Better Post-hoc Interpretability

Grouped Feature Importance and Combined Features Effect Plot

Comparing Explanation Methods for Traditional Machine Learning Models Part 1: An Overview of Current Methods and Quantifying Their Disagreement

Comparing Explanation Methods for Traditional Machine Learning Models Part 2: Quantifying Model Explainability Faithfulness and Improvements with Dimensionality Reduction

Statistical inference using machine learning and classical techniques based on accumulated local effects (ALE)


Portuguese pre-trained BERT models

BERT models for Brazilian Portuguese: Pretraining, evaluation and tokenization analysis

Portuguese Named Entity Recognition using BERT-CRF

Pre-training Polish Transformer-based Language Models at Scale

LegalNLP - Natural Language Processing methods for the Brazilian Legal Language

Benchmarking Natural Language Inference and Semantic Textual Similarity for Portuguese

TASTEset -- Recipe Dataset and Food Entities Recognition Benchmark

Sense representations for Portuguese: experiments with sense embeddings and deep neural language models


OBOE: Extensible Observation Ontology

How to Integrate Experimental Research Approaches in Ecological and Environmental Studies: AnaEE France as an Example

The I-ADOPT Interoperability Framework for FAIRer data descriptions of biodiversity

Towards an interoperability framework for observable property terminologies


IslandPath standalone software

Improved genomic island predictions with IslandPath-DIMOB

Microbial genomic island discovery, visualization and analysis

Whole-Genome Sequencing Analysis of Quorum Quenching Bacterial Strain Acinetobacter lactucae QL-1 Identifies the FadY Enzyme for Degradation of the Diffusible Signal Factor

International journal of molecular sciences

Analysis of Genetic Diversity and Antibiotic Options for Clinical Listeria monocytogenes Infections in China


Mostly deprecated. See https://github.com/PacificBiosciences/FALCON_unzip/wiki/Binaries

Long-read genome sequence assembly provides insight into ongoing retroviral invasion of the koala germline

De novo assembly of a Tibetan genome and identification of novel structural variants associated with high-altitude adaptation

Genome puzzle master (GPM): an integrated pipeline for building and editing pseudomolecules from fragmented sequences

Draft genome assembly of Tenualosa ilisha, Hilsa shad, provides resource for osmoregulation studies

Reduced Genome of the Gut Symbiotic Bacterium “Candidatus Benitsuchiphilus tojoi” Provides Insight Into Its Possible Roles in Ecology and Adaptation of the Host Insect

Draft Genome Sequence of Putative 2-Methylisoborneol-Producing Pseudanabaena yagii Strain GIHE-NHR1, Isolated from the North Han River in South Korea.

Genome Sequencing of Hericium coralloides by a Combination of PacBio RS II and Next-Generation Sequencing Platforms


Runtime verification tool for Solidity smart contracts.

Empirical Review of Automated Analysis Tools on 47,587 Ethereum Smart Contracts

Zenodo (CERN European Organization for Nuclear Research)

An Analysis of Smart Contracts Security Threats Alongside Existing Solutions

Continuous and Secure Integration Framework for Smart Contracts


A tool to reduce the size of Oxford Nanopore Technologies' datasets without losing information

Telomere-to-telomere assemblies of 142 strains characterize the genome structural landscape in Saccharomyces cerevisiae

Portable nanopore-sequencing technology: Trends in development and applications

SquiggleKit: A toolkit for manipulating nanopore signal data


The jBPT code library is a compendium of technologies that support research on design, execution, and evaluation of business processes. The library offers a broad range of basis analysis and utility functionality and, due to its open publishing model, can easily be extended.

Entropia: A Family of Entropy-Based Conformance Checking Measures for Process Mining

Optimization-Based Business Process Model Matching

Stochastic Directly-Follows Process Discovery Using Grammatical Inference


A preprocessing and QC pipeline for HiChIP data

hichipper: a preprocessing pipeline for calling DNA loops from HiChIP data

MAPS: Model-based analysis of long-range chromatin interactions from PLAC-seq and HiChIP experiments

Integrative analysis of vascular endothelial cell genomic features identifies AIDA as a coronary artery disease candidate gene

Manipulation of TAD reorganization by chemical-dependent genome linking


Tutorials on the use of (Gaia) astrometry in astronomical data analysis or inference problems.

Multiwavelength Variability of BL Lacertae Measured with High Time Resolution

Chemical Abundance Signature of J0023+0307: A Second-generation Main-sequence Star with [Fe/H] < -6

Bow shocks, bow waves, and dust waves - III. Diagnostics

Dust in the Wolf–Rayet nebula M 1-67

Monthly Notices of the Royal Astronomical Society

Solving the distance discrepancy for the open cluster NGC 2453. The planetary nebula NGC 2452 is not a cluster member


Gradient based Hyperparameter Tuning library in PyTorch

Online Learning Rate Adaptation with Hypergradient Descent

AutoML to Date and Beyond: Challenges and Opportunities

MARTHE: Scheduling the Learning Rate Via Online Hypergradients

AutoLRS: Automatic Learning-Rate Schedule by Bayesian Optimization on the Fly

Scheduling the Learning Rate Via Hypergradients: New Insights and a New Algorithm

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


Package for Neural Posterior Estimation and Importance Sampling focused on Astronomical Applications

Deep Residual Learning for Image Recognition

Learning Phrase Representations using RNN Encoder-Decoder for Statistical Machine Translation

Masked Autoregressive Flow for Density Estimation

nbi: the Astronomer's Package for Neural Posterior Estimation

Stellar Spectra Fitting with Amortized Neural Posterior Estimation and nbi


PathoNet introduced as a deep neural network backend for evaluation of Ki-67 and tumor-infiltrating lymphocytes in breast cancer

Breast Cancer Dataset, Classification and Detection Using Deep Learning


Combining climdex.pcic and climpact @ UNSW

Development of an Updated Global Land In Situ‐Based Data Set of Temperature and Precipitation Extremes: HadEX3

Journal of Geophysical Research: Atmospheres

A High-Resolution Global Gridded Historical Dataset of Climate Extreme Indices

International Conference on Data Technologies and Applications

Evaluation of Extreme Precipitation Based on Three Long-Term Gridded Products over the Qinghai-Tibet Plateau

Spatial Variation and Trend of Extreme Precipitation in West Africa and Teleconnections with Remote Indices

Future Heat Waves in Different European Capitals Based on Climate Change Indicators

International journal of environmental research and public health

Refining the Spatial Scale for Maize Crop Agro-Climatological Suitability Conditions in a Region with Complex Topography towards a Smart and Sustainable Agriculture. Case Study: Central Romania (Cluj County)

Spatial Heterogeneity and Complexity of the Impact of Extreme Climate on Vegetation in China

Overcoming Data Scarcity in Earth Science

Statistical analysis of extreme weather events in the Diyala River basin, Iraq

Comparing climate change indices between a northern (arid) and a southern (humid) basin in Mexico during the last decades


Semantic similarity metrics for image registration

DeepSim: Semantic similarity metrics for learned image registration


Tensor Algebra Library Routines for Shared Memory Systems

Implementation of Relativistic Coupled Cluster Theory for Massively Parallel GPU-Accelerated Computing Architectures

Journal of chemical theory and computation

cuTT: A High-Performance Tensor Transpose Library for CUDA Compatible GPUs

GFCCLib: Scalable and efficient coupled-cluster Green's function library for accurately tackling many-body electronic structure problems


Empirical wave runup models implemented in Python


Qcover is an open source effort to help exploring combinatorial optimization problems in Noisy Intermediate-scale Quantum(NISQ) processor.

Efficient Classical Computation of Quantum Mean Values for Shallow QAOA Circuits

Quafu-Qcover: Explore combinatorial optimization problems on cloud-based quantum computers


Image Quality Framework

QMRNet: Quality Metric Regression for EO Image Quality Assessment and Super-Resolution

IQUAFLOW: A new framework to measure image quality


Logic Explained Networks is a python repository implementing explainable-by-design deep learning models.

Entropy-Based Logic Explanations of Neural Networks

Logic Explained Networks

PyTorch, Explain! A Python library for Logic Explained Networks

Extending Logic Explained Networks to Text Classification


Prediction of neo-epitope immunogenicity reveals TCR recognition determinants and provides insight into immunoediting

Computational cancer neoantigen prediction: current status and recent advances


Reinforcement Learning Agents in Javascript (Dynamic Programming, Temporal Difference, Deep Q-Learning, Stochastic/Deterministic Policy Gradients)

Mice identify subgoal locations through an action-driven mapping process

Context-Aware Composition of Agent Policies by Markov Decision Process Entity Embeddings and Agent Ensembles


Query Generation for Question Answering over Knowledge Bases

IQA: Interactive query construction in semantic question answering systems

Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data

Deep Query Ranking for Question Answering over Knowledge Bases

MACHINE LEARNING AND KNOWLEDGE DISCOVERY IN DATABASES, ECML PKDD 2018, PT III


This repository is the official implementation of Improving Object-centric Learning With Query Optimization

Improving Object-centric Learning with Query Optimization

Spotlight Attention: Robust Object-Centric Learning With a Spatial Locality Prior


A pytorch CUDA extension implementation of instant-ngp (sdf and nerf), with a GUI.

Instant Neural Graphics Primitives with a Multiresolution Hash Encoding

TensoRF: Tensorial Radiance Fields

Zero-Shot Text-Guided Object Generation with Dream Fields

CLIP-NeRF: Text-and-Image Driven Manipulation of Neural Radiance Fields

SparseFusion: Distilling View-conditioned Diffusion for 3D Reconstruction

WIRE: Wavelet Implicit Neural Representations

HumanRF: High-Fidelity Neural Radiance Fields for Humans in Motion

Compressible-composable NeRF via Rank-residual Decomposition

Loc-NeRF: Monte Carlo Localization using Neural Radiance Fields

DiffusioNeRF: Regularizing Neural Radiance Fields with Denoising Diffusion Models


Data and information about the Polaris study

A reference data set of 5.4 million phased human variants validated by genetic inheritance from sequencing a three-generation 17-member pedigree

ExpansionHunter: a sequence-graph-based tool to analyze variation in short tandem repeat regions

Assessing structural variation in a personal genome—towards a human reference diploid genome

ExpansionHunter Denovo: a computational method for locating known and novel repeat expansions in short-read sequencing data

Characterization of 137 Genomic DNA Reference Materials for 28 Pharmacogenetic Genes: A GeT-RM Collaborative Project

The Journal of molecular diagnostics : JMD

Diversity in non-repetitive human sequences not found in the reference genome

Deep whole-genome sequencing of 3 cancer cell lines on 2 sequencing platforms

Inheritance of paternal DNA damage by histone-mediated repair restriction

NPSV: A simulation-driven approach to genotyping structural variants in whole-genome sequencing data

GeneBreaker: Variant simulation to improve the diagnosis of Mendelian rare genetic diseases


A Survey of Algorithms for Black-Box Safety Validation of Cyber-Physical Systems

A Survey of Challenges for Runtime Verification from Advanced Application Domains (Beyond Software)

Two-Layered Falsification of Hybrid Systems Guided by Monte Carlo Tree Search

Multi-Armed Bandits for Boolean Connectives in Hybrid System Falsification (Extended Version)

Fast Falsification of Hybrid Systems using Probabilistically Adaptive Input

Algebraic Quantitative Semantics for Efficient Online Temporal Monitoring

Tools and Algorithms for Construction and Analysis of Systems

Constrained Optimization for Hybrid System Falsification and Application to Conjunctive Synthesis

Ensuring Reliable Robot Task Performance through Probabilistic Rare-Event Verification and Synthesis


Graph Convolutional Networks in PyTorch

Semi-Supervised Classification with Graph Convolutional Networks

AM-GCN: Adaptive Multi-channel Graph Convolutional Networks

Graph Random Neural Network for Semi-Supervised Learning on Graphs

Layer-Dependent Importance Sampling for Training Deep and Large Graph Convolutional Networks

Be Confident! Towards Trustworthy Graph Neural Networks via Confidence Calibration

Local Augmentation for Graph Neural Networks

Invariance-Preserving Localized Activation Functions for Graph Neural Networks

Learning Theory Can (Sometimes) Explain Generalisation in Graph Neural Networks

Indirect Adversarial Attacks via Poisoning Neighbors for Graph Convolutional Networks

K-Core Based Temporal Graph Convolutional Network for Dynamic Graphs

IEEE Transactions on Knowledge and Data Engineering


Multi-agent PPO with noise (97% win rates on Hard scenarios of SMAC)

ACE: Cooperative Multi-agent Q-learning with Bidirectional Action-Dependency

Policy Regularization via Noisy Advantage Values for Cooperative Multi-agent Actor-Critic methods

Noisy-MAPPO: Noisy Advantage Values for Cooperative Multi-agent Actor-Critic methods.


An integer linear program solver using a Lagrange decomposition into binary decision diagrams. Lagrange multipliers are updated through dual block coordinate ascent.

Efficient Message Passing for 0-1 ILPs with Binary Decision Diagrams

FastDOG: Fast Discrete Optimization on GPU

DOGE-Train: Discrete Optimization on GPU with End-to-end Training

Fast Discrete Optimisation for Geometrically Consistent 3D Shape Matching


Open-source benchmark datasets and pretrained transformer models in the Filipino language.

Localization of Fake News Detection via Multitask Transfer Learning

Establishing Baselines for Text Classification in Low-Resource Languages

Exploiting News Article Structure for Automatic Corpus Generation of Entailment Datasets

Pagsusuri ng RNN-based Transfer Learning Technique sa Low-Resource Language


The primary source code repository for PHCpack, a software package to solve polynomial systems with homotopy continuation methods.

A Robust Numerical Path Tracking Algorithm for Polynomial Homotopy Continuation

Accelerating Polynomial Homotopy Continuation on a Graphics Processing Unit with Double Double and Quad Double Arithmetic

Least Squares on GPUs in Multiple Double Precision

Extrapolating Solution Paths of Polynomial Homotopies towards
  Singularities with PHCpack and phcpy

Extrapolating on Taylor Series Solutions of Homotopies with Nearby Poles


Coconut: Threshold Issuance Selective Disclosure Credentials with Applications to Distributed Ledgers.

AStERISK: Auction-based Shared Economy ResolutIon Markets for Blockchain Platforms

Coconut E-Petition Implementation


A tool written in go to help you factor carbon intensity into decisions about where and when to run computing jobs.


[ECCV] Swin2SR: SwinV2 Transformer for Compressed Image Super-Resolution and Restoration.  Advances in Image Manipulation (AIM) workshop ECCV 2022. Try it out! over 3.3M runs https://replicate.com/mv-lab/swin2sr

SwinIR: Image Restoration Using Swin Transformer

AIM 2022 Challenge on Super-Resolution of Compressed Image and Video: Dataset, Methods and Results

CSwin2SR: Circular Swin2SR for Compressed Image Super-Resolution


A pipeline for running AMRfinderPlus and collating results into functional classes

Evolutionary dynamics of multidrug resistant Salmonella enterica serovar 4,[5],12:i:- in Australia

Genomic Epidemiology and Antimicrobial Resistance Mechanisms of Imported Typhoid in Australia

Integrative omics identifies conserved and pathogen-specific responses of sepsis-causing bacteria

Inter-species gene flow drives ongoing evolution ofStreptococcus pyogenesandStreptococcus dysgalactiaesubsp.equisimilis

Hidden Resistances: How Routine Whole-Genome Sequencing Uncovered an Otherwise Undetected blaNDM-1 Gene in Vibrio alginolyticus from Imported Seafood.

Resistance to first-line antibiotic therapy among patients with uncomplicated acute cystitis in Melbourne, Australia: prevalence, predictors and clinical impact


This is a 3D Slicer extension for segmentation and spatial reconstruction of infiltrated, collapsed, and emphysematous areas in lung CT.

Different Lung Parenchyma Quantification Using Dissimilar Segmentation Software: A Multi-Center Study for COVID-19 Patients

Radiomics to predict the mortality of patients with rheumatoid arthritis-associated interstitial lung disease: A proof-of-concept study

First results of spatial reconstruction and quantification of COVID-19 chest CT infiltrates using lung CT analyzer and 3D slicer

From Voxels to Prognosis: AI-Driven Quantitative Chest CT Analysis Forecasts ICU Requirements in 78 COVID-19 Cases


an automated river analysis and mapping engine


Object-oriented multi-mesh version of the classic reacting turbulent multiphase flow solver

Comparison of methods for curvature estimation from volume fractions

Capturing thin structures in VOF simulations with two-plane
  reconstruction


Formatted datasets for Machine Learning With R by Brett Lantz

Utility and Privacy Assessments of Synthetic Data for Regression Tasks

Selective Regression Under Fairness Criteria

Encoding Categorical Variables with Conjugate Bayesian Models for WeWork Lead Scoring Engine

An implicit function learning approach for parametric modal regression

Using Sequential Statistical Tests for Efficient Hyperparameter Tuning


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

The Astrophysical Journal Supplement Series

Machine Learning Techniques for Stellar Light Curve Classification

A CNN adapted to time series for the classification of Supernovae

From FATS to feets: Further improvements to an astronomical feature extraction tool based on machine learning

Streaming classification of variable stars


Collection of Evaluation Metrics and Algorithms for Machine Translation

Improving Low-Resource Neural Machine Translation with Filtered Pseudo-Parallel Corpus

VizSeq: A Visual Analysis Toolkit for Text Generation Tasks

Empirical Methods in Natural Language Processing

Detecting Untranslated Content for Neural Machine Translation

Meeting of the Association for Computational Linguistics

Pseudotext Injection and Advance Filtering of Low-Resource Corpus for Neural Machine Translation

Computational intelligence and neuroscience

Selecting Informative Context Sentence by Forced Back-Translation

Does NMT make a difference when post-editing closely related languages? The case of Spanish-Catalan

L'architecture d'un modèle hybride pour la normalisation de SMS (A hybrid model architecture for SMS normalization)


TwoPhaseFlow: An OpenFOAM based framework for development of two phase flow solvers

Numerical wetting benchmarks -- advancing the plicRDF-isoAdvector unstructured Volume-of-Fluid (VOF) method

Stabilizing the unstructured Volume-of-Fluid method for capillary flows in microstructures using artificial viscosity

A benchmark for surface-tension-driven incompressible two-phase flows


Men Also Like Shopping: Reducing Gender Bias Amplification using Corpus-level Constraints

Fairness Testing: A Comprehensive Survey and Analysis of Trends

Mitigating Gender Bias Amplification in Distribution by Posterior Regularization

The potential of artificial intelligence for achieving healthy and sustainable societies


DAGs with NO TEARS: Continuous Optimization for Structure Learning

Learning Sparse Nonparametric DAGs

On the Role of Sparsity and DAG Constraints for Learning Linear DAGs

Beware of the Simulated DAG! Causal Discovery Benchmarks May Be Easy to Game

DAGMA: Learning DAGs via M-matrices and a Log-Determinant Acyclicity Characterization

DAGs with No Curl: An Efficient DAG Structure Learning Approach

Unsuitability of NOTEARS for Causal Graph Discovery when Dealing with Dimensional Quantities

Ordering-Based Causal Discovery with Reinforcement Learning

Variational Causal Networks: Approximate Bayesian Inference over Causal Structures


A compressed, associative, exact, and weighted dictionary for k-mers.

Sparse and skew hashing of K-mers

On weighted k-mer dictionaries

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


[EMNLP'21] Visual News: Benchmark and Challenges in News Image Captioning

Mitigating Hallucination in Large Multi-Modal Models via Robust Instruction Tuning

MMC: Advancing Multimodal Chart Understanding with Large-scale Instruction Tuning

HallusionBench: An Advanced Diagnostic Suite for Entangled Language Hallucination & Visual Illusion in Large Vision-Language Models

Visual Named Entity Linking: A New Dataset and A Baseline


Code and data for paper "Grid Tagging Scheme for Aspect-oriented Fine-grained Opinion Extraction". Aspect opinion pair datasets and aspect triplet datasets.

Position-Aware Tagging for Aspect Sentiment Triplet Extraction

Target-oriented Opinion Words Extraction with Target-fused Neural Sequence Labeling

North American Chapter of the Association for Computational Linguistics

Bidirectional Machine Reading Comprehension for Aspect Sentiment Triplet Extraction

COM-MRC: A COntext-Masked Machine Reading Comprehension Framework for Aspect Sentiment Triplet Extraction

Proceedings of the 2022 Conference on Empirical Methods in Natural Language Processing


Prosit offers high quality MS2 predicted spectra for any organism and protease as well as iRT prediction. When using Prosit is helpful for your research, please cite "Gessulat, Schmidt et al. 2019" DOI 10.1038/s41592-019-0426-7

Sensitive Immunopeptidomics by Leveraging Available Large-Scale Multi-HLA Spectral Libraries, Data-Independent Acquisition, and MS/MS Prediction

MS2Rescore: Data-Driven Rescoring Dramatically Boosts Immunopeptide Identification Rates

Benchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics

Removing the hidden data dependency of DIA with predicted spectral libraries

The impact of noise and missing fragmentation cleavages on de novo peptide identification algorithms

Computational and structural biotechnology journal


A prize for finding tasks that cause large language models to show inverse scaling

Emergent Abilities of Large Language Models

Retrieval-Augmented Generation for Large Language Models: A Survey

Harnessing the Power of LLMs in Practice: A Survey on ChatGPT and Beyond

A Survey on In-context Learning

Model evaluation for extreme risks

Inverse Scaling: When Bigger Isn't Better

Inverse scaling can become U-shaped

Uncontrolled Lexical Exposure Leads to Overestimation of Compositional Generalization in Pretrained Models

The Larger They Are, the Harder They Fail: Language Models do not Recognize Identifier Swaps in Python

Fly-Swat or Cannon? Cost-Effective Language Model Choice via Meta-Modeling


This is a  paper list about Machine Learning for IDSes

A Deep Learning Approach for Network Intrusion Detection System

Proceedings of the 9th EAI International Conference on Bio-inspired Information and Communications Technologies (formerly BIONETICS)

Collective Anomaly Detection Based on Long Short-Term Memory Recurrent Neural Networks

Intrusion detection using reduced-size RNN based on feature grouping

A Semantic Parsing Based LSTM Model for Intrusion Detection

NEURAL INFORMATION PROCESSING (ICONIP 2018), PT IV


SCAN: Learning to Classify Images without Labels, incl. SimCLR. [ECCV 2020]

A Simple Framework for Contrastive Learning of Visual Representations

Revisiting Contrastive Methods for Unsupervised Learning of Visual Representations

Beyond Supervised vs. Unsupervised: Representative Benchmarking and Analysis of Image Representation Learning

On Initial Pools for Deep Active Learning

Anomaly Clustering: Grouping Images into Coherent Clusters of Anomaly Types

Unsupervised Manifold Linearizing and Clustering

Unsupervised Learning under Latent Label Shift

Out-of-Distribution Detection Without Class Labels

Deep Clustering With a Constraint for Topological Invariance Based on Symmetric InfoNCE


BLOCK (AAAI 2019), with a multimodal fusion library for deep learning models

BLOCK: Bilinear Superdiagonal Fusion for Visual Question Answering and Visual Relationship Detection

RTIC: Residual Learning for Text and Image Composition using Graph Convolutional Network

Accuracy vs. Complexity: A Trade-off in Visual Question Answering Models

Question-Agnostic Attention for Visual Question Answering

International Conference on Pattern Recognition

Fashion-IQ 2020 Challenge 2nd Place Team's Solution


A plugin for GTAV that transforms it into a vision-based self-driving car research environment.

SqueezeSeg: Convolutional Neural Nets with Recurrent CRF for Real-Time Road-Object Segmentation from 3D LiDAR Point Cloud

Scenic: a language for scenario specification and scene generation

Programming Language Design and Implementation

A LiDAR Point Cloud Generator: from a Virtual World to Autonomous Driving

Geometry-Aware Symmetric Domain Adaptation for Monocular Depth Estimation

A Curriculum Domain Adaptation Approach to the Semantic Segmentation of Urban Scenes

Precise Synthetic Image and LiDAR (PreSIL) Dataset for Autonomous Vehicle Perception

Scenic: a language for scenario specification and data generation

Learning to Map Vehicles into Bird's Eye View

Paracosm: A Language and Tool for Testing Autonomous Driving Systems

Gradient-free Policy Architecture Search and Adaptation


Kaldi-based Korean ASR (한국어 음성인식) open-source project

KsponSpeech: Korean Spontaneous Speech Corpus for Automatic Speech Recognition

ClovaCall: Korean Goal-Oriented Dialog Speech Corpus for Automatic Speech Recognition of Contact Centers

Kosp2e: Korean Speech to English Translation Corpus

Open Korean Corpora: A Practical Report

Proceedings of Second Workshop for NLP Open Source Software (NLP-OSS)

Exploring Lexicon-Free Modeling Units for End-to-End Korean and Korean-English Code-Switching Speech Recognition

Cascading and Direct Approaches to Unsupervised Constituency Parsing on Spoken Sentences


Deep Reinforcement Learning for de-novo Drug Design

Deep reinforcement learning for de novo drug design

Advances of Artificial Intelligence in Anti-Cancer Drug Design: A Review of the Past Decade

Computational anti-COVID-19 drug design: progress and challenges

Molecular guidelines for promising antimicrobial agents

S-REINFORCE: A Neuro-Symbolic Policy Gradient Approach for Interpretable Reinforcement Learning


RLeXplore provides stable baselines of exploration methods in reinforcement learning, such as intrinsic curiosity module (ICM), random network distillation (RND) and rewarding impact-driven exploration (RIDE).

Exploration by Random Network Distillation

Self-Supervised Exploration via Disagreement

Never Give Up: Learning Directed Exploration Strategies

RIDE: Rewarding Impact-Driven Exploration for Procedurally-Generated Environments

Is Exploration All You Need? Effective Exploration Characteristics for
  Transfer in Reinforcement Learning


a molecular descriptor calculator

DeepSnap-Deep Learning Approach Predicts Progesterone Receptor Antagonist Activity With High Performance

Frontiers in bioengineering and biotechnology

Pre-Training on In Vitro and Fine-Tuning on Patient-Derived Data Improves Deep Neural Networks for Anti-Cancer Drug-Sensitivity Prediction

Outlier-Based Domain of Applicability Identification for Materials Property Prediction Models

Mosquito Olfactory Response Ensemble enables pattern discovery by curating a behavioral and electrophysiological response database


Implementation of Graph Auto-Encoders in TensorFlow

Modeling Relational Data with Graph Convolutional Networks

Variational Graph Auto-Encoders

Deep Learning on Graphs: A Survey

Graph Self-Supervised Learning: A Survey

Graph embedding on biomedical networks: methods, applications and evaluations

Self-supervised Heterogeneous Graph Neural Network with Co-contrastive Learning

Neural Bellman-Ford Networks: A General Graph Neural Network Framework for Link Prediction

Graph-based Semi-supervised Learning: A Comprehensive Review

Discrete-time Temporal Network Embedding via Implicit Hierarchical Learning in Hyperbolic Space

Equivariant and Stable Positional Encoding for More Powerful Graph Neural Networks


Distributed Deep Learning, with a focus on distributed training, using Keras and Apache Spark.

Deep learning with Elastic Averaging SGD

Asynchrony begets Momentum, with an Application to Deep Learning

Fast and Scalable Distributed Deep Convolutional Autoencoder for fMRI Big Data Analytics

Accumulated Gradient Normalization

LHC signals of a heavy doublet Higgs as dark matter portal: cut-based approach and improvement with gradient boosting and neural networks

Pushing the boundaries of parallel Deep Learning -- A practical approach


SV detection from paired end reads mapping

Parliament2: Accurate structural variant calling at scale

Validation and implementation of a modular targeted capture assay for the detection of clinically significant molecular oncology alterations

Integrating Genetic Structural Variations and Whole-Genome Sequencing Into Clinical Neurology

Mutation Characteristics and Phylogenetic Analysis of Five Leishmania Clinical Isolates

Animals : an open access journal from MDPI


Code for the AAAI 2018 Paper "HARP: Hierarchical Representation Learning for Networks"

MILE: A Multi-Level Framework for Scalable Graph Embedding

Hierarchical message-passing graph neural networks

Exponential Family Graph Embeddings

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

A Provable Framework of Learning Graph Embeddings via Summarization

THIRTY-SEVENTH AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE, VOL 37 NO 4

SMGRL: Scalable Multi-resolution Graph Representation Learning


Blender Addon to render light fields with depth and disparity maps

Fristograms: Revealing and Exploiting Light Field Internals


PyTorch implementation of a 1.3B text-to-image generation model trained on 14 million image-text pairs

Scaling Autoregressive Models for Content-Rich Text-to-Image Generation

Holistic Evaluation of Text-To-Image Models

StoryDALL-E: Adapting Pretrained Text-to-Image Transformers for Story Continuation

Visual Programming for Text-to-Image Generation and Evaluation

Davidsonian Scene Graph: Improving Reliability in Fine-grained Evaluation for Text-to-Image Generation

No "Zero-Shot" Without Exponential Data: Pretraining Concept Frequency
  Determines Multimodal Model Performance

Survey of Social Bias in Vision-Language Models


A research platform to develop automated security policies using quantitative methods, e.g., optimal control, computational game theory, reinforcement learning, optimization, evolutionary methods, and causal inference.

Scalable Learning of Intrusion Responses through Recursive Decomposition

Learning Near-Optimal Intrusion Responses Against Dynamic Attackers

Learning Security Strategies through Game Play and Optimal Stopping

A System for Interactive Examination of Learned Security Policies

Automated Security Response through Online Learning with Adaptive
  Conjectures

Conjectural Online Learning with First-order Beliefs in Asymmetric
  Information Stochastic Games

Intrusion Tolerance for Networked Systems through Two-Level Feedback
  Control


Meta-Learning with Implicit Gradients

Deep Equilibrium Models

Bilevel Optimization: Convergence Analysis and Enhanced Design

On the Iteration Complexity of Hypergradient Computation

On the Convergence Theory for Hessian-Free Bilevel Algorithms

Global Convergence and Induced Kernels of Gradient-Based Meta-Learning with Neural Nets.

Bilevel Optimization for Machine Learning: Algorithm Design and Convergence Analysis

Bilevel Optimization with a Lower-level Contraction: Optimal Sample Complexity without Warm-start

Nonsmooth Implicit Differentiation: Deterministic and Stochastic
  Convergence Rates


Deepdrive is a simulator that allows anyone with a PC to push the state-of-the-art in self-driving

Scalable End-to-End Autonomous Vehicle Testing via Rare-event Simulation

End-to-end Autonomous Driving: Challenges and Frontiers

ScenarioNet: Open-Source Platform for Large-Scale Traffic Scenario Simulation and Modeling

OpenPodcar: an Open Source Vehicle for Self-Driving Car Research

Development of a Simulator for Prototyping Reinforcement Learning-Based Autonomous Cars


A package to run AI weather models

Do AI models produce better weather forecasts than physics-based models? A quantitative evaluation case study of Storm Ciarán

ChaosBench: A Multi-Channel, Physics-Based Benchmark for
  Subseasonal-to-Seasonal Climate Prediction

Emerging AI-based weather prediction models as downscaling tools


Code and data of ACL 2021 paper "Few-NERD: A Few-shot Named Entity Recognition Dataset"

Few-NERD: A Few-Shot Named Entity Recognition Dataset

Decomposed Meta-Learning for Few-Shot Named Entity Recognition

SpanProto: A Two-stage Span-based Prototypical Network for Few-shot Named Entity Recognition

A survey on recent advances in named entity recognition

Reconciliation of Pre-trained Models and Prototypical Neural Networks in Few-shot Named Entity Recognition

Unifying Token- and Span-level Supervisions for Few-shot Sequence Labeling


ResShift: Efficient Diffusion Model for Image Super-resolution by Residual Shifting (NeurIPS@2023 Spotlight, TPAMI@2024)

DifFace: Blind Face Restoration with Diffused Error Contraction

Efficient Diffusion Model for Image Restoration by Residual Shifting


Adaptive Attention Span for Reinforcement Learning

IMPALA: Scalable Distributed Deep-RL with Importance Weighted Actor-Learner Architectures

Stabilizing Transformers for Reinforcement Learning

Adaptive Attention Span in Transformers

Adaptive Transformers in RL


Course materials for Introduction to Introduction to Physical Oceanography (EESC4925)


Distributed and fault-tolerant realtime computation: stream processing, continuous computation, distributed RPC, and more

Internet of Things Platform for Smart Farming: Experiences and Lessons Learnt

MapReduce is Good Enough? If All You Have is a Hammer, Throw Away Everything That's Not a Nail!

The Family of MapReduce and Large Scale Data Processing Systems

Muppet: MapReduce-Style Processing of Fast Data

Efficient Distributed Locality Sensitive Hashing

Does Technical Debt Lead to the Rejection of Pull Requests?

VScope: Middleware for Troubleshooting Time-Sensitive Data Center Applications

A Survey on Transactional Stream Processing

Large Scale Estimation in Cyberphysical Systems using Streaming Data: a Case Study with Smartphone Traces

Scalable real-time processing with Spark Streaming: implementation and design of a Car Information System


Interactive analysis of metagenomics data

Pavian: interactive analysis of metagenomics data for microbiome studies and pathogen identification

Computational methods for 16S metabarcoding studies using Nanopore sequencing data

New Invasive Nemertean Species (Cephalothrix Simula) in England with High Levels of Tetrodotoxin and a Microbiome Linked to Toxin Metabolism

The Application of Nanopore Sequencing Technology to the Study of Dinoflagellates: A Proof of Concept Study for Rapid Sequence-Based Discrimination of Potentially Harmful Algae

Microbiome Analysis of the Rhizosphere from Wilt Infected Pomegranate Reveals Complex Adaptations in Fusarium—A Preliminary Study

Contamination detection and microbiome exploration with GRIMER

Enhanced leachate phytodetoxification test combined with plants and rhizobacteria bioaugmentation

Diversity of Decomposer Bacteria in Eco Enzyme Fermentation Process of Organic Materials Using Oxford Nanopore Technology (ONT) and its Effectiveness in Inhibiting E-coli in Fish Pond with Water Mineral Soil


Canonical repository for the Disconnect services file

IoT Inspector: Crowdsourcing Labeled Network Traffic from Smart Home Devices at Scale

Fingerprinting the Fingerprinters: Learning to Detect Browser Fingerprinting Behaviors

Under the Spotlight: Web Tracking in Indian Partisan News Websites

There's No Trick, Its Just a Simple Trick: A Web-Compat and Privacy Improving Approach to Third-party Web Storage

Crumbled Cookie Exploring E-commerce Websites Cookie Policies with Data Protection Regulations


Working with eBird data in R


Comparing causality methods in a fair and just way.

Evaluation Methods and Measures for Causal Learning Algorithms

Improving Data-driven Heterogeneous Treatment Effect Estimation Under Structure Uncertainty

Data-Driven Estimation of Heterogeneous Treatment Effects


[EMNLP 2019 Workshop] Exploiting BERT for End-to-End Aspect-based Sentiment Analysis

An Interactive Multi-Task Learning Network for End-to-End Aspect-Based Sentiment Analysis

A Dependency Syntactic Knowledge Augmented Interactive Architecture for End-to-End Aspect-based Sentiment Analysis

YASO: A Targeted Sentiment Analysis Evaluation Dataset for Open-Domain Reviews

Jointly Modeling Aspect and Sentiment with Dynamic Heterogeneous Graph Neural Networks

On the Current State of Reproducibility and Reporting of Uncertainty for Aspect-Based Sentiment Analysis

Machine Learning and Knowledge Discovery in Databases


Implementation of Dreamer v3 in pytorch.

Mastering Diverse Domains through World Models

World Models via Policy-Guided Trajectory Diffusion

MAMBA: an Effective World Model Approach for Meta-Reinforcement Learning

Hieros: Hierarchical Imagination on Structured State Space Sequence World Models


mixup: Beyond Empirical Risk Minimization

Learning from Noisy Labels with Deep Neural Networks: A Survey

Avoiding Overfitting: A Survey on Regularization Methods for Convolutional Neural Networks

EASY: Ensemble Augmented-Shot Y-shaped Learning: State-Of-The-Art Few-Shot Classification with Simple Ingredients

MixUp as Directional Adversarial Training

GenLabel: Mixup Relabeling using Generative Models

Semantic Perturbations with Normalizing Flows for Improved Generalization

Robustness to Label Noise Depends on the Shape of the Noise Distribution in Feature Space

Midpoint Regularization: From High Uncertainty Training Labels to Conservative Classification Decisions

Focus-and-Expand: Training Guidance Through Gradual Manipulation of Input Features


Collection of NLP model explanations and accompanying analysis tools

Thermostat: A Large Collection of NLP Model Explanations and Analysis Tools


Ablating Concepts in Text-to-Image Diffusion Models  (ICCV 2023)

MACE: Mass Concept Erasure in Diffusion Models

UnlearnCanvas: A Stylized Image Dataset to Benchmark Machine Unlearning
  for Diffusion Models

One-dimensional Adapter to Rule Them All: Concepts, Diffusion Models and Erasing Applications

Get What You Want, Not What You Don't: Image Content Suppression for
  Text-to-Image Diffusion Models

Reliable and Efficient Concept Erasure of Text-to-Image Diffusion Models


Demystifying MMD GANs

Efficient Geometry-aware 3D Generative Adversarial Networks

Single-Stage Diffusion NeRF: A Unified Approach to 3D Generation and Reconstruction

Next3D: Generative Neural Texture Rasterization for 3D-Aware Head Avatars

3D GAN Inversion with Pose Optimization

Real-Time Radiance Fields for Single-Image Portrait View Synthesis

DisCoScene: Spatially Disentangled Generative Radiance Fields for Controllable 3D-aware Scene Synthesis

SceneDreamer: Unbounded 3D Scene Generation From 2D Image Collections

VIVE3D: Viewpoint-Independent Video Editing using 3D-Aware GANs

Comprehensive Vulnerability Evaluation of Face Recognition Systems to Template Inversion Attacks via 3D Face Reconstruction

IEEE transactions on pattern analysis and machine intelligence


Optimal Transport Dataset Distance

Cross-Modal Fine-Tuning: Align then Refine

Dataset Dynamics via Gradient Flows in Probability Space

Cross-Linguistic Syntactic Difference in Multilingual BERT: How Good is It and How Does It Affect Transfer?

Generating Synthetic Datasets by Interpolating along Generalized Geodesics

Speeding Up EfficientNet: Selecting Update Blocks of Convolutional Neural Networks using Genetic Algorithm in Transfer Learning

Quantifying the Hardness of Bioactivity Prediction Tasks for Transfer Learning

Journal of Chemical Information and Modeling


ViLMedic (Vision-and-Language medical research) is a modular framework for vision and language multimodal research in the medical field

Contrastive Learning of Medical Visual Representations from Paired Images and Text

Generating Radiology Reports via Memory-driven Transformer

GLoRIA: A Multimodal Global-Local Representation Learning Framework for Label-efficient Medical Image Recognition

International Conference on Computer Vision

Improving Factual Completeness and Consistency of Image-to-Text Radiology Report Generation

Improving the Factual Correctness of Radiology Report Generation with Semantic Rewards

ViLMedic: a framework for research at the intersection of vision and language in medical AI

Proceedings of the 60th Annual Meeting of the Association for Computational Linguistics: System Demonstrations

Overview of the RadSum23 Shared Task on Multi-modal and Multi-anatomical Radiology Report Summarization

Workshop on Biomedical Natural Language Processing

QIAI at MEDIQA 2021: Multimodal Radiology Report Summarization

Toward Expanding the Scope of Radiology Report Summarization to Multiple Anatomies and Modalities


active learning for accelerated high-throughput virtual screening

Accelerating high-throughput virtual screening through molecular pool-based active learning

Self-focusing virtual screening with active design space pruning

Artificial Intelligence in Material Engineering: A Review on Applications of Artificial Intelligence in Material Engineering

Pareto Optimization to Accelerate Multi-Objective Virtual Screening


Code release for NeRF (Neural Radiance Fields)

NeRF: Representing Scenes as Neural Radiance Fields for View Synthesis

NeRF in the Wild: Neural Radiance Fields for Unconstrained Photo Collections

Neural Sparse Voxel Fields

Volume Rendering of Neural Implicit Surfaces

NeX: Real-time View Synthesis with Neural Basis Expansion

Direct Feedback Alignment Scales to Modern Deep Learning Tasks and Architectures

Stochastic Neural Radiance Fields: Quantifying Uncertainty in Implicit 3D Representations

Conditional-Flow NeRF: Accurate 3D Modelling with Reliable Uncertainty Quantification

A COMPARISON BETWEEN 3D RECONSTRUCTION USING NERF NEURAL NETWORKS AND MVS ALGORITHMS ON CULTURAL HERITAGE IMAGES

The international archives of the photogrammetry, remote sensing and spatial information sciences/International archives of the photogrammetry, remote sensing and spatial information sciences

NEURAL RADIANCE FIELDS (NERF): REVIEW AND POTENTIAL APPLICATIONS TO DIGITAL CULTURAL HERITAGE


Algorithms for computing global land surface temperature and emissivity from NASA's Landsat satellite images with Python.


A TensorFlow Implementation of the Transformer: Attention Is All You Need

Attention Is All You Need

Semantic Neural Machine Translation using AMR

Transactions of the Association for Computational Linguistics

Hardware Accelerator for Multi-Head Attention and Position-Wise Feed-Forward in the Transformer

Ancient–Modern Chinese Translation with a New Large Training Dataset

Tackling Graphical NLP problems with Graph Recurrent Networks

Instance Explainable Temporal Network For Multivariate Timeseries

UniMatch: A Unified User-Item Matching Framework for the Multi-purpose Merchant Marketing


A repository and benchmark for online test-time adaptation.

Continual Test-Time Domain Adaptation

Robust Mean Teacher for Continual and Gradual Test-Time Adaptation

Introducing Intermediate Domains for Effective Self-Training during Test-Time

Universal Test-time Adaptation through Weight Ensembling, Diversity Weighting, and Prior Correction

Decoupled Prototype Learning for Reliable Test-Time Adaptation


EntitySeg Toolbox: Towards Open-World and High-Quality Image Segmentation

Open-World Entity Segmentation

High Quality Segmentation for Ultra High-resolution Images

High Quality Entity Segmentation

ManiTrans: Entity-Level Text-Guided Image Manipulation via Token-wise Semantic Alignment and Generation

CA-SSL: Class-Agnostic Semi-Supervised Learning for Detection and Segmentation

Rethinking Evaluation Metrics of Open-Vocabulary Segmentaion

UniGS: Unified Representation for Image Generation and Segmentation

AIMS: All-Inclusive Multi-Level Segmentation

Automatically Discovering Novel Visual Categories with Self-supervised Prototype Learning


A collection of non-residential buildings for performance analysis and algorithm benchmarking


NuCypher fully homomorphic encryption (NuFHE) library implemented in Python

HEAX: An Architecture for Computing on Encrypted Data

ARK: Fully Homomorphic Encryption Accelerator with Runtime Data Generation and Inter-Operation Key Reuse

Accelerating Encrypted Computing on Intel GPUs

MemFHE: End-to-end Computing with Fully Homomorphic Encryption in Memory

FPT: A Fixed-Point Accelerator for Torus Fully Homomorphic Encryption

SoK: Fully Homomorphic Encryption Accelerators

ArctyrEX : Accelerated Encrypted Execution of General-Purpose Applications

Strix: An End-to-End Streaming Architecture with Two-Level Ciphertext Batching for Fully Homomorphic Encryption with Programmable Bootstrapping


Implementation of the variational continual learning method

Variational Continual Learning

Using Hindsight to Anchor Past Knowledge in Continual Learning

Improving and Understanding Variational Continual Learning

Overcoming Catastrophic Forgetting by Generative Regularization

FoCL: Feature-Oriented Continual Learning for Generative Models

Continual Invariant Risk Minimization


DiffSinger: Singing Voice Synthesis via Shallow Diffusion Mechanism (SVS & TTS); AAAI 2022; Official code

Pseudo Numerical Methods for Diffusion Models on Manifolds

PortaSpeech: Portable and High-Quality Generative Text-to-Speech

CoMoSpeech: One-Step Speech and Singing Voice Synthesis via Consistency Model

ResGrad: Residual Denoising Diffusion Probabilistic Models for Text to Speech

Learning the Beauty in Songs: Neural Singing Voice Beautifier

Schrodinger Bridges Beat Diffusion Models on Text-to-Speech Synthesis

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


Finetuned Language Models Are Zero-Shot Learners

Scaling Instruction-Finetuned Language Models

The Flan Collection: Designing Data and Methods for Effective Instruction Tuning

Instruction Tuning for Large Language Models: A Survey

OPT-IML: Scaling Language Model Instruction Meta Learning through the Lens of Generalization

TrueTeacher: Learning Factual Consistency Evaluation with Large Language Models

KoLA: Carefully Benchmarking World Knowledge of Large Language Models

Evaluating the Zero-shot Robustness of Instruction-tuned Language Models

Understanding LLMs: A Comprehensive Overview from Training to Inference

MAP-Neo: Highly Capable and Transparent Bilingual Large Language Model Series


Marching cubes (and related tools) for Python

Generative Multiplane Images: Making a 2D GAN 3D-Aware

3D generation on ImageNet

NeRFMeshing: Distilling Neural Radiance Fields into Geometrically-Accurate 3D Meshes

Occupancy Planes for Single-view RGB-D Human Reconstruction

Learning Neural Radiance Fields from Multi-View Geometry

A cyber-physical system to design 3D models using mixed reality technologies and deep learning for additive manufacturing


Deep Learning for Astronomers with Keras

Deep learning of multi-element abundances from high-resolution spectroscopic data

Monthly notices of the Royal Astronomical Society

Simultaneous calibration of spectro-photometric distances and the Gaia DR2 parallax zero-point offset with deep learning

Monthly Notices of the Royal Astronomical Society

The age-chemical abundance structure of the Galactic disc II:
  α-dichotomy and thick disc formation

Solar image denoising with convolutional neural networks

Quantifying radial migration in the Milky Way: inefficient over short time-scales but essential to the very outer disc beyond ∼15 kpc

The Milky Way tomography with APOGEE: intrinsic density distribution and structure of mono-abundance populations

A variational encoder-decoder approach to precise spectroscopic age estimation for large Galactic surveys

Elemental Abundance Distributions in the (R, V  ϕ ) Plane with LAMOST DR5 and Gaia DR2

The stellar mass of the Gaia-Sausage/Enceladus accretion remnant

Timing the Milky Way bar formation and the accompanying radial migration
  episode


[EMNLP 2023] Enabling Large Language Models to Generate Text with Citations. Paper: https://arxiv.org/abs/2305.14627

Self-RAG: Learning to Retrieve, Generate, and Critique through Self-Reflection

Citation-Enhanced Generation for LLM-based Chatbots

SEMQA: Semi-Extractive Multi-Source Question Answering

Learning to Plan and Generate Text with Citations

CtrlA: Adaptive Retrieval-Augmented Generation via Inherent Control

CaLM: Contrasting Large and Small Language Models to Verify Grounded
  Generation


Official implementation for "iTransformer: Inverted Transformers Are Effective for Time Series Forecasting" (ICLR 2024 Spotlight), https://openreview.net/forum?id=JePfAI8fah

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

TimeMachine: A Time Series is Worth 4 Mambas for Long-term Forecasting

Attractor Memory for Long-Term Time Series Forecasting: A Chaos
  Perspective

Time-SSM: Simplifying and Unifying State Space Models for Time Series Forecasting

Medformer: A Multi-Granularity Patching Transformer for Medical
  Time-Series Classification

CMamba: Channel Correlation Enhanced State Space Models for Multivariate
  Time Series Forecasting

Fredformer: Frequency Debiased Transformer for Time Series Forecasting

ROSE: Register Assisted General Time Series Forecasting with Decomposed
  Frequency Learning


A TensorFlow implementation of the Differentiable Neural Computer.

Deep Reinforcement Learning: An Overview

Implementing Neural Turing Machines

Training Neural Networks for and by Interpolation

L4: Practical loss-based stepsize adaptation for deep learning

Self-Attentive Associative Memory

Learning to Remember More with Less Memorization

Text normalization using memory augmented neural networks

Adaptive Partial Scanning Transmission Electron Microscopy with Reinforcement Learning

Multigrid Neural Memory

Memory and attention in deep learning


Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.

Latest techniques to study DNA methylation

Genome-wide detection of cytosine methylations in plant from Nanopore data using deep learning

Oxford Nanopore sequencing: new opportunities for plant genomics?

Application of long-read sequencing to the detection of structural variants in human cancer genomes

Computational and structural biotechnology journal

Rapid-CNS2: rapid comprehensive adaptive nanopore-sequencing of CNS tumors, a proof-of-concept study

Impact of lossy compression of nanopore raw signal data on basecalling and consensus accuracy

Distinguishing between recruitment and spread of silent chromatin structures in Saccharomyces cerevisiae

Exploring the crop epigenome: a comparison of DNA methylation profiling techniques

Targeted long-read sequencing captures CRISPR editing and AAV integration outcomes in brain

Molecular therapy : the journal of the American Society of Gene Therapy

DeepMP: a deep learning tool to detect DNA base modifications on Nanopore sequencing data


Simple Text-Generator with OpenAI gpt-2 Pytorch Implementation

Attention Is All You Need

Code Prediction by Feeding Trees to Transformers

TURINGBENCH: A Benchmark Environment for Turing Test in the Age of Neural Text Generation

Don’t take “nswvtnvakgxpm” for an answer –The surprising vulnerability of automatic content scoring systems to adversarial input

International Conference on Computational Linguistics

Incremental Text-to-Speech Synthesis Using Pseudo Lookahead With Large Pretrained Language Model

Stochastic Parrots Looking for Stochastic Parrots: LLMs are Easy to Fine-Tune and Hard to Detect with other LLMs

Low-Latency Incremental Text-to-Speech Synthesis with Distilled Context Prediction Network


Scribbles or Points-based weakly-supervised learning for medical image segmentation, a strong baseline, and tutorial for research and application.

Mumford–Shah Loss Functional for Image Segmentation With Deep Learning

IEEE transactions on image processing : a publication of the IEEE Signal Processing Society

Scribble2Label: Scribble-Supervised Cell Segmentation via Self-Generating Pseudo-Labels with Consistency

WORD: A large scale dataset, benchmark and clinical applicable study for abdominal organ segmentation from CT image

Scribble-Supervised Medical Image Segmentation via Dual-Branch Network and Dynamically Mixed Pseudo Labels Supervision

Unsupervised Total Variation Loss for Semi-supervised Deep Learning of Semantic Segmentation

S^2ME: Spatial-Spectral Mutual Teaching and Ensemble Learning for Scribble-supervised Polyp Segmentation

Scribble-based 3D Multiple Abdominal Organ Segmentation via Triple-branch Multi-dilated Network with Pixel- and Class-wise Consistency


Create adversarial attacks against machine learning Windows malware detectors

Adversarial EXEmples: A Survey and Experimental Evaluation of Practical Attacks on Machine Learning for Windows Malware Detection

The Threat of Offensive AI to Organizations

Secml-Malware: Pentesting Windows Malware Classifiers with Adversarial Exemples in Python

Efficient Malware Analysis Using Metric Embeddings


Simple scripts to benchmark kubernetes cluster features

A Pragmatical Approach to Anomaly Detection Evaluation in Edge Cloud Systems

Extending Kubernetes Networking to make use of Segment Routing over IPv6 (SRv6)

An Open-Source Experimentation Framework for the Edge Cloud Continuum

Performance Evaluation of Kubernetes Networking Approaches across Constraint Edge Environments


Evolution of Antibiotic Tolerance Shapes Resistance Development in Chronic Pseudomonas aeruginosa Infections

Global radiation in a rare biosphere soil diatom

Paralogs and off-target sequences improve phylogenetic resolution in a densely-sampled study of the breadfruit genus (Artocarpus, Moraceae)

Specialist Bee Species Are Larger and Less Phylogenetically Distinct Than Generalists in Tropical Plant–Bee Interaction Networks

Identification of a neural basis for cold acclimation in Drosophila larvae

Dynamic evolution of transposable elements, demographic history, and gene content of paleognathous birds

Relative Importance of Ecological, Evolutionary and Anthropogenic Pressures on Extinction Risk in Chinese Angiosperm Genera


Learned in Translation: Contextualized Word Vectors

What do you learn from context? Probing for sentence structure in contextualized word representations

Stochastic Answer Networks for Machine Reading Comprehension

Stochastic Answer Networks for SQuAD 2.0

Improving Matching Models with Hierarchical Contextualized Representations for Multi-turn Response Selection

Improving Matching Models with Contextualized Word Representations for Multi-turn Response Selection in Retrieval-based Chatbots.

SNU_IDS at SemEval-2018 Task 12: Sentence Encoder with Contextualized Vectors for Argument Reasoning Comprehension

Leveraging Pre-trained Models for Failure Analysis Triplets Generation


[CVPR2019] The Perfect Match: 3D Point Cloud Matching with Smoothed Densities

End-to-End Learning Local Multi-view Descriptors for 3D Point Clouds

ARCS: Accurate Rotation and Correspondence Search


Implementation of papers in 100 lines of code.

Adam: A Method for Stochastic Optimization

Image-to-Image Translation with Conditional Adversarial Networks

Unpaired Image-to-Image Translation using Cycle-Consistent Adversarial Networks

Unsupervised Representation Learning with Deep Convolutional Generative Adversarial Networks

Playing Atari with Deep Reinforcement Learning

Model-Agnostic Meta-Learning for Fast Adaptation of Deep Networks

Denoising Diffusion Probabilistic Models

Conditional Generative Adversarial Nets

Improved Training of Wasserstein GANs

Improved Techniques for Training GANs


OCR toolbox from Davar-Lab

Text Perceptron: Towards End-to-End Arbitrary-Shaped Text Spotting

TRIE: End-to-End Text Reading and Information Extraction for Document Understanding

MANGO: A Mask Attention Guided One-Stage Scene Text Spotter

LGPMA: Complicated Table Structure Recognition with Local and Global Pyramid Mask Alignment

VSR: A Unified Framework for Document Layout Analysis combining Vision, Semantics and Relations

You Only Recognize Once: Towards Fast Video Text Spotting

SPIN: Structure-Preserving Inner Offset Network for Scene Text Recognition

Modeling Entities as Semantic Points for Visual Information Extraction in the Wild

Reciprocal Feature Learning via Explicit and Implicit Tasks in Scene Text Recognition

End-to-End Compound Table Understanding with Multi-Modal Modeling

Proceedings of the 30th ACM International Conference on Multimedia


This is an official implementation of Unfolding the Alternating Optimization for Blind Super Resolution

DAN: Deep Attention Neural Network for News Recommendation

THIRTY-THIRD AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTY-FIRST INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE / NINTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE

End-to-end Alternating Optimization for Blind Super Resolution

End-to-End Alternating Optimization for Real-World Blind Super Resolution

International Journal of Computer Vision

Meta-Learned Kernel For Blind Super-Resolution Kernel Estimation

Kernelized Back-Projection Networks for Blind Super Resolution


Implementations of Reinforcement Learning Models in Tensorflow

Continuous control with deep reinforcement learning

Asynchronous Methods for Deep Reinforcement Learning

GenPADS: Reinforcing politeness in an end-to-end dialogue system


NeurIPS'18: Co-teaching: Robust Training of Deep Neural Networks with Extremely Noisy Labels

Learning from Noisy Labels with Deep Neural Networks: A Survey

Masking: A New Perspective of Noisy Supervision

Decoupled Knowledge Distillation

Searching to Exploit Memorization Effect in Learning from Corrupted Labels

FINE Samples for Learning with Noisy Labels

Wasserstein Adversarial Regularization (WAR) on label noise

Robustness to Label Noise Depends on the Shape of the Noise Distribution in Feature Space

Combating Bilateral Edge Noise for Robust Link Prediction

Label Noise-Robust Learning using a Confidence-Based Sieving Strategy


An efficient PyTorch implementation of the winning entry of the 2017 VQA Challenge.

Bottom-Up and Top-Down Attention for Image Captioning and Visual Question Answering

Don't Take the Easy Way Out: Ensemble Based Methods for Avoiding Known Dataset Biases

Tips and Tricks for Visual Question Answering: Learnings from the 2017 Challenge

Modeling Relationships in Referential Expressions with Compositional Modular Networks

Counterfactual Samples Synthesizing for Robust Visual Question Answering

Overcoming Language Priors in Visual Question Answering with Adversarial Regularization

Cycle-Consistency for Robust Visual Question Answering

Greedy Gradient Ensemble for Robust Visual Question Answering

Counterfactual Samples Synthesizing and Training for Robust Visual Question Answering

LPF: A Language-Prior Feedback Objective Function for De-biased Visual Question Answering

SIGIR '21 - PROCEEDINGS OF THE 44TH INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL


Implementation of the Louvain algorithm for community detection with various methods for use with igraph in python.

Faster unfolding of communities: Speeding up the Louvain algorithm

Physical review. E, Statistical, nonlinear, and soft matter physics

Targeted pharmacological therapy restores β-cell function for diabetes remission

Detecting communities using asymptotical surprise

Post-Processing Partitions to Identify Domains of Modularity Optimization

Compressing Networks with Super Nodes

HiDeF: identifying persistent structures in multiscale ‘omics data

bioRxiv : the preprint server for biology

T cells modulate the microglial response to brain ischemia

A transcriptional cross species map of pancreatic islet cells

Human alpha cell transcriptomic signatures of types 1 and 2 diabetes highlight disease-specific dysfunction pathways

Synaptotagmin 13 orchestrates pancreatic endocrine cell egression and islet morphogenesis


Punctuation restoration and spell correction experiments.

PANCETTA: Phoneme Aware Neural Completion to Elicit Tongue Twisters Automatically

SD-Eval: A Benchmark Dataset for Spoken Dialogue Understanding Beyond Words


A Collection of BM25 Algorithms in Python

A Neural Corpus Indexer for Document Retrieval

DialFact: A Benchmark for Fact-Checking in Dialogue

Extreme Multi-label Learning for Semantic Matching in Product Search

LESS: Selecting Influential Data for Targeted Instruction Tuning

A Bi-Step Grounding Paradigm for Large Language Models in Recommendation Systems

Patton: Language Model Pretraining on Text-Rich Networks

Beyond NED: Fast and Effective Search Space Reduction for Complex Question Answering over Knowledge Bases

Coverage-based Example Selection for In-Context Learning

CSFCube -- A Test Collection of Computer Science Research Articles for Faceted Query by Example

RedHOT: A Corpus of Annotated Medical Questions, Experiences, and Claims on Social Media


Official code for "DPM-Solver: A Fast ODE Solver for Diffusion Probabilistic Model Sampling in Around 10 Steps" (Neurips 2022 Oral)

DPM-Solver++: Fast Solver for Guided Sampling of Diffusion Probabilistic Models

TF-ICON: Diffusion-Based Training-Free Cross-Domain Image Composition

Prompt Tuning Inversion for Text-Driven Image Editing Using Diffusion Models

DPM-Solver-v3: Improved Diffusion ODE Solver with Empirical Model Statistics

Diffusion Models and Semi-Supervised Learners Benefit Mutually with Few Labels

OMS-DPM: Optimizing the Model Schedule for Diffusion Probabilistic Models

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

SEEDS: Exponential SDE Solvers for Fast High-Quality Sampling from Diffusion Models

PFB-Diff: Progressive Feature Blending Diffusion for Text-driven Image Editing


RWKV is an RNN with transformer-level LLM performance. It can be directly trained like a GPT (parallelizable). So it's combining the best of RNN and transformer - great performance, fast inference, saves VRAM, fast training, "infinite" ctx_len, and free sentence embedding.

GLU Variants Improve Transformer

SmoothQuant: Accurate and Efficient Post-Training Quantization for Large Language Models

RWKV: Reinventing RNNs for the Transformer Era

Hyena Hierarchy: Towards Larger Convolutional Language Models

xLSTM: Extended Long Short-Term Memory

Zoology: Measuring and Improving Recall in Efficient Language Models

Eagle and Finch: RWKV with Matrix-Valued States and Dynamic Recurrence

SelfEvolve: A Code Evolution Framework via Large Language Models

Simple linear attention language models balance the recall-throughput
  tradeoff

RRAML: Reinforced Retrieval Augmented Machine Learning


Physics-informed neural networks package

Physics-Informed Neural Networks for Missing Physics Estimation in Cumulative Damage Models: A Case Study in Corrosion Fatigue

Journal of Computing and Information Science in Engineering

A Physics-informed Neural Network for Wind Turbine Main Bearing Fatigue

International Journal of Prognostics and Health Management

Fleet Prognosis with Physics-informed Recurrent Neural Networks

Wind Turbine Main Bearing Fatigue Life Estimation with Physics-informed Neural Networks

Cumulative Damage Modeling with Recurrent Neural Networks

Physics-Informed Neural Networks for Corrosion-Fatigue Prognosis

Physics-Informed Neural Networks for Bias Compensation in Corrosion-Fatigue

Hybrid Model for Wind Turbine Main Bearing Fatigue with Uncertainty in Grease Observations


Sanitation System Alternative Generator


KnowledgeNet: A Benchmark Dataset for Knowledge Base Population

Matching the Blanks: Distributional Similarity for Relation Learning

Entity, Relation, and Event Extraction with Contextualized Span Representations

Empirical Methods in Natural Language Processing

Survey on English Entity Linking on Wikidata

Enriching Relation Extraction with OpenIE


Automated DAOPHOT-based PSF photometry pipeline

HYDRA II: A FAINT AND COMPACT MILKY WAY DWARF GALAXY FOUND IN THE SURVEY OF THE MAGELLANIC STELLAR HISTORY

SMASH - Survey of the MAgellanic Stellar History

SMASHing the LMC: A Tidally Induced Warp in the Outer LMC and a Large-scale Reddening Map

VARIABLE STARS IN THE FIELD OF THE HYDRA II ULTRA-FAINT DWARF GALAXY

Exploring the Very Extended Low-surface-brightness Stellar Populations of the Large Magellanic Cloud with SMASH

SMASH 1: A VERY FAINT GLOBULAR CLUSTER DISRUPTING IN THE OUTER REACHES OF THE LMC?

The Second Data Release of the Survey of the MAgellanic Stellar History (SMASH)

The Large Magellanic Cloud stellar content with SMASH. I. Assessing the stability of the Magellanic spiral arms


Empirical evaluation and analysis of state-of-the-art methods for unsupervised domain adaptation on OFFICE-31 dataset, a benchmark dataset for visual domain adaptation.

Domain-Adversarial Training of Neural Networks

Contrastive Adaptation Network for Unsupervised Domain Adaptation

Multi-Adversarial Domain Adaptation

CDTrans: Cross-domain Transformer for Unsupervised Domain Adaptation


Create NNN primers tiling codons of a gene for codon mutagenesis

Mapping mutational effects along the evolutionary landscape of HIV envelope

A pseudovirus system enables deep mutational scanning of the full SARS-CoV-2 spike

Comprehensive mapping of avian influenza polymerase adaptation to the human host

Globally defining the effects of mutations in a picornavirus capsid

Mapping the neutralizing specificity of human anti-HIV serum by deep mutational scanning

Deep mutagenesis scanning using whole trimeric SARS-CoV-2 spike highlights the importance of NTD-RBD interactions in determining spike phenotype

An RNA-based system to study hepatitis B virus replication and evaluate antivirals


Check whether targets are in the field of view of NASA's K2 space telescope

Target selection of classical pulsating variables for space-based photometry

Building and Calibrating the Binary Star Population Using Kepler Data

The Astrophysical Journal Supplement Series

The K2 Galactic Archaeology Program: Overview, target selection and survey properties


Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)

GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes

GetOrganelle: a simple and fast pipeline for de novo assembly of a complete circular chloroplast genome using genome skimming data

Evolutionary Comparisons of the Chloroplast Genome in Lauraceae and Insights into Loss Events in the Magnoliids

Plastid Genome Evolution in the Early-Diverging Legume Subfamily Cercidoideae (Fabaceae)

A systematic comparison of chloroplast genome assembly tools

The Complete Chloroplast Genomes of Two Lespedeza Species: Insights into Codon Usage Bias, RNA Editing Sites, and Phylogenetic Relationships in Desmodieae (Fabaceae: Papilionoideae)

The Complete Chloroplast Genome of a Key Ancestor of Modern Roses, Rosa chinensis var. spontanea, and a Comparison with Congeneric Species

Comparative Analyses of Euonymus Chloroplast Genomes: Genetic Structure, Screening for Loci With Suitable Polymorphism, Positive Selection Genes, and Phylogenetic Relationships Within Celastrineae

Phylogenomic analyses reveal intractable evolutionary history of a temperate bamboo genus (Poaceae: Bambusoideae)

Comparative analysis of plastid genomes within the Campanulaceae and phylogenetic implications