Extension of the SentenceSimplification project

Transforming Complex Sentences into a Semantic Hierarchy

DisSim: A Discourse-Aware Syntactic Text Simplification Framework for English and German

Context-Preserving Text Simplification

Discourse-Aware Text Simplification: From Complex Sentences to Linked Propositions


Gradient boosted models (the old gbm package)

Principles of mRNA targeting via the Arabidopsis m6A-binding protein ECT2

A hierarchical reserving model for reported non-life insurance claims

Prediction of Leaf Wetness Duration Using Geostationary Satellite Observations and Machine Learning Algorithms

Solving estimating equations with copulas

Predicting the Potential Habitat Distribution of Crataegus Pontica C. Koch, Using a Combined Modeling Approach in Lorestan Province

LUC at ComMA-2021 Shared Task: Multilingual Gender Biased and Communal Language Identification without using linguistic features


ScanFold is an RNA sequence scanning pipeline which attempts to identify potentially functional RNA secondary structures. This is done by first scanning a single input sequence to identify regions which generate negative thermodynamic z-scores (a hallmark of functional RNA sequences), and subsequently identifying the specific base pairs which were responsible for generating the low z-scores.

ScanFold: an approach for genome-wide discovery of local RNA structural elements—applications to Zika virus and HIV

Mapping the RNA structural landscape of viral genomes.

RNA structural analysis of the MYC mRNA reveals conserved motifs that affect gene expression

Prediction and analysis of functional RNA structures within the integrative genomics viewer


CLIP (Contrastive Language–Image Pre-training) for Italian

Learning Transferable Visual Models From Natural Language Supervision

Persistent Anti-Muslim Bias in Large Language Models

WIT: Wikipedia-based Image Text Dataset for Multimodal Multilingual Machine Learning

Contrastive Language-Image Pre-training for the Italian Language

PEA-Diffusion: Parameter-Efficient Adapter with Knowledge Distillation in non-English Text-to-Image Generation


TensorFlow Implementation of Neural Attentive Item Similarity Model for Recommendation on TKDE 2018

NAIS: Neural Attentive Item Similarity Model for Recommendation

IEEE Transactions on Knowledge and Data Engineering

Deep Item-based Collaborative Filtering for Top-N Recommendation

Simultaneous Learning of the Inputs and Parameters in Neural Collaborative Filtering


Comprehensive suite for rule-based learning

RuleKit: A Comprehensive Suite for Rule-Based Learning

Survival Prediction of Children Undergoing Hematopoietic Stem Cell Transplantation Using Different Machine Learning Classifiers by Performing Chi-squared Test and Hyper-parameter Optimization: A Retrospective Analysis

Separate and conquer heuristic allows robust mining of contrast sets in classification, regression, and survival data


Phigaro is a scalable command-line tool for predicting phages and prophages

Phigaro: high-throughput prophage sequence annotation

Phigaro: high throughput prophage sequence annotation

Whole-genome analysis of carbapenem-resistant Acinetobacter baumannii from clinical isolates in Southern Thailand

Zenodo (CERN European Organization for Nuclear Research)


A Fairness-aware Incentive Scheme for Federated Learning

PROCEEDINGS OF THE 3RD AAAI/ACM CONFERENCE ON AI, ETHICS, AND SOCIETY AIES 2020

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

FedCG: Leverage Conditional GAN for Protecting Privacy and Maintaining Competitive Performance in Federated Learning

StarFL: Hybrid Federated Learning Architecture for Smart Urban Computing

ACM Transactions on Intelligent Systems and Technology

Toward Responsible AI: An Overview of Federated Learning for User-centered Privacy-preserving Computing

ACM Transactions on Interactive Intelligent Systems


C++ Large Scale Genetic Programming

Contemporary Symbolic Regression Methods and their Relative Performance

GECCO Companion - Operon C++: an efficient genetic programming framework for symbolic regression

Genetic and Evolutionary Computation Conference

Interpretability in symbolic regression: a benchmark of explanatory methods using the Feynman data set

Genetic Programming and Evolvable Machines

syren-halofit: A fast, interpretable, high-precision formula for the
  ΛCDM nonlinear matter power spectrum

Local Optimization Often is Ill-conditioned in Genetic Programming for Symbolic Regression

A precise symbolic emulator of the linear matter power spectrum

Rank-based Non-dominated Sorting


The Termination Problem Database

Proving Non-Termination and Lower Runtime Bounds with LoAT (System Description)

Improving Automatic Complexity Analysis of Integer Programs

A Complete Dependency Pair Framework for Almost-Sure Innermost Termination of Probabilistic Term Rewriting

Targeting Completeness: Using Closed Forms for Size Bounds of Integer Programs

Automatic Complexity Analysis of Integer Programs via Triangular Weakly Non-Linear Loops

Proving Termination of C Programs with Lists

A Dependency Pair Framework for Relative Termination of Term Rewriting


an easy-to-use knn-mt toolkit

Towards Robust k-Nearest-Neighbor Machine Translation

kNN-BOX: A Unified Framework for Nearest Neighbor Generation

What Knowledge Is Needed? Towards Explainable Memory for kNN-MT Domain Adaptation

kNN-TL: k-Nearest-Neighbor Transfer Learning for Low-Resource Neural Machine Translation

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


Contains the behavior engine FlexBE.

Human-robot collaborative high-level control with application to rescue robotics

International Conference on Robotics and Automation

Reactive high-level behavior synthesis for an Atlas humanoid robot

Collaborative Autonomy between High‐level Behaviors and Human Operators for Remote Manipulation Tasks using Different Humanoid Robots

Flexible Navigation: Finite state machine-based integrated navigation and control for ROS enabled robots

A Comprehensive Software Framework for Complex Locomotion and Manipulation Tasks Applicable to Different Types of Humanoid Robots


Neural Machine Translation with Keras

Online Learning for Effort Reduction in Interactive Neural Machine Translation

Active Learning for Interactive Neural Machine Translation of Data Streams

Adapting Neural Machine Translation with Parallel Synthetic Data

Proceedings of the Second Conference on Machine Translation

deepQuest: A Framework for Neural-based Quality Estimation

International Conference on Computational Linguistics

Online Learning for Neural Machine Translation Post-editing

NMT-Keras: a Very Flexible Toolkit with a Focus on Interactive NMT and Online Learning

The Prague Bulletin of Mathematical Linguistics

Low-Resource Machine Transliteration Using Recurrent Neural Networks of Asian Languages


Various speech datasets made available to the public

Earnings-21: A Practical Benchmark for ASR in the Wild

Earnings-22: A Practical Benchmark for Accents in the Wild

Updated Corpora and Benchmarks for Long-Form Speech Recognition

Longer is (Not Necessarily) Stronger: Punctuated Long-Sequence Training for Enhanced Speech Recognition and Translation

Implementing contextual biasing in GPU decoder for online ASR


Reduce - tool for adding and correcting hydrogens in PDB files

DiffDock: Diffusion Steps, Twists, and Turns for Molecular Docking

EquiBind: Geometric Deep Learning for Drug Binding Structure Prediction

Machine Learning to Identify Flexibility Signatures of Class A GPCR Inhibition

Harmonic Self-Conditioned Flow Matching for Multi-Ligand Docking and Binding Site Design

DSDP: A Blind Docking Strategy Accelerated by GPUs

Modeling Molecular Structures with Intrinsic Diffusion Models


This repo contains the code for generating the ToxiGen dataset, published at ACL 2022.

ToxiGen: A Large-Scale Machine-Generated Dataset for Adversarial and Implicit Hate Speech Detection

Interpretable Unified Language Checking

Can LLMs Recognize Toxicity? A Structured Investigation Framework and Toxicity Metric

Examining Forgetting in Continual Pre-training of Aligned Large Language Models


Deep learning quantum Monte Carlo for electrons in real space

Deep neural network solution of the electronic Schrödinger equation

Solving the electronic Schrödinger equation for multiple nuclear geometries with weight-sharing deep neural networks

A Self-Attention Ansatz for Ab-initio Quantum Chemistry

Gold-standard solutions to the Schrödinger equation using deep learning: How much physics do we need?

Convergence to the fixed-node limit in deep variational Monte Carlo

Forward Laplacian: A New Computational Framework for Neural Network-based Variational Monte Carlo


Basic operations on the space of numerical functions defined on the genome using lazy evaluators for flexibility and efficiency

WiggleTools: parallel processing of large collections of genome-wide datasets for visualization and statistical analysis

The sex-specific factor SOA controls dosage compensation in Anopheles mosquitoes

The transcription factor HIF2α partakes in the differentiation block of acute myeloid leukemia

Gene Regulatory Interactions at Lamina-Associated Domains

Pergola: Boosting Visualization and Analysis of Longitudinal Data by Unlocking Genomic Analysis Tools

Cellular and Genomic Features of Muscle Differentiation from Isogenic Fibroblasts and Myoblasts


:fire: Use pre-trained models in PyTorch to extract vector embeddings for any image

EfficientNet: Rethinking Model Scaling for Convolutional Neural Networks

Certainty Equivalent Perception-Based Control

Coreset Clustering on Small Quantum Computers

The Newspaper Navigator Dataset: Extracting And Analyzing Visual Content from 16 Million Historic Newspaper Pages in Chronicling America

Active Membership Inference Attack under Local Differential Privacy in Federated Learning

Index-based, High-dimensional, Cosine Threshold Querying with Optimality Guarantees


A list projects to make emergency ventilators in response to COVID-19, focusing on free-libre open source

Low-tech solutions for the COVID19 supply chain crisis

Partially RepRapable automated open source bag valve mask-based ventilator

How do we share data in COVID-19 research? A systematic review of COVID-19 datasets in PubMed Central Articles

Can Open Source Hardware Mechanical Ventilator (OSH-MVs) initiatives help cope with the COVID-19 health crisis? Taxonomy and state of the art

Emergency Blower-Based Ventilator with Novel-Designed Ventilation Sensor and Actuator

Overcoming supply disruptions during pandemics by utilizing found hardware for open source gentle ventilation

Frugal Innovation: Enabling Mechanical Ventilation During Coronavirus Disease 2019 Pandemic in Resource-Limited Settings

Open ventilator evaluation framework: A synthesized database of regulatory requirements and technical standards for emergency use ventilators from Australia, Canada, UK, and US

The HEV Ventilator.

Evidence-Based Considerations for the Design of an Open-Source Ventilator: A Systematic Review


Immunoglobulin and T-Cell receptor rearrangement software

Integrated pipeline for the accelerated discovery of antiviral antibody therapeutics

PyIR: a scalable wrapper for processing billions of immunoglobulin and T cell receptor sequences using IgBLAST

High-sensitive spatially resolved T cell receptor sequencing with SPTCR-seq

Immune repertoire fingerprinting by principal component analysis reveals shared features in subject groups with common exposures


U-Net Biomedical Image Segmentation

Decentralized Federated Learning for Healthcare Networks: A Case Study on Tumor Segmentation

Systematic Evaluation of Image Tiling Adverse Effects on Deep Learning Semantic Segmentation

Implementation of a Modified U-Net for Medical Image Segmentation on Edge Devices

IEEE Transactions on Circuits and Systems II: Express Briefs

Addressing the Memory Bottleneck in AI Model Training


Build Hierarchical Autonomous Agents through Config. Collaborative Growth of Specialized Agents.

Let's Verify Step by Step

Augmented Language Models: a Survey

Specializing Smaller Language Models towards Multi-Step Reasoning

ReWOO: Decoupling Reasoning from Observations for Efficient Augmented Language Models

Gentopia: A Collaborative Platform for Tool-Augmented LLMs

CACTUS: Chemistry Agent Connecting Tool-Usage to Science


A software toolkit for gravity field recovery and GNSS processing

RECOG RL01: correcting GRACE total water storage estimates for global lakes/reservoirs and earthquakes

Comparison and generalization of GNSS satellite attitude models


Automated reaction pathway search for gas-phase molecules

KinBot: Automated stationary point search on potential energy surfaces

Unimolecular Reaction Pathways of a γ-Ketohydroperoxide from Combined Application of Automated Reaction Discovery Methods

Journal of the American Chemical Society

Adventures on the C3H5O potential energy surface: OH+propyne, OH+allene and related reactions

Pressure-Dependent Competition among Reaction Pathways from First- and Second-O2 Additions in the Low-Temperature Oxidation of Tetrahydrofuran

Influence of oxygenation in cyclic hydrocarbons on chain-termination reactions from R + O2: tetrahydropyran and cyclohexane

Decomposition and isomerization of 1-pentanol radicals and the pyrolysis of 1-pentanol

Quantitative Detection of Products and Radical Intermediates in Low-Temperature Oxidation of Cyclopentane.

Photoionization mass spectrometric measurements of initial reaction pathways in low-temperature oxidation of 2,5-dimethylhexane.

A Combined Experimental and Theoretical Study of the Reaction OH + 2-Butene in the 400-800 K Temperature Range.

A New Pathway for Intersystem Crossing: Unexpected Products in the O(3P) + Cyclopentene Reaction.


experiments with RETURNN

Improved training of end-to-end attention models for speech recognition

RWTH ASR Systems for LibriSpeech: Hybrid vs Attention

Language Modeling with Deep Transformers

Self-attention Networks for Connectionist Temporal Classification in Speech Recognition

International Conference on Acoustics, Speech, and Signal Processing

RETURNN as a Generic Flexible Neural Toolkit with Application to Translation and Speech Recognition

Meeting of the Association for Computational Linguistics

Generating Synthetic Audio Data for Attention-Based Speech Recognition Systems

A Comparative Study on End-to-end Speech to Text Translation

A New Training Pipeline for an Improved Neural Transducer

Investigating Methods to Improve Language Model Integration for Attention-based Encoder-Decoder ASR Models

Why does CTC result in peaky behavior?


Conversion of IPCC documents into semantic form


Resource Watch features hundreds of data sets all in one place on the state of the planet’s resources and citizens. Users can visualize challenges facing people and the planet, from climate change to poverty, water risk to state instability, air pollution to human migration, and more.


Flexible Statistics and Data Analysis (FSDA) extends MATLAB for a robust analysis of data sets affected by different sources of heterogeneity. It is open source software licensed under the European Union Public Licence (EUPL). FSDA is a joint project by the University of Parma and the Joint Research Centre of the European Commission.

Automatic robust Box–Cox and extended Yeo–Johnson transformations in regression

The Fourier-Malliavin Volatility (FMVol) MATLAB library


Semi-Parametric Editing with a Retrieval-Augmented Counterfactual Model

Fast Model Editing at Scale

Memory-Based Model Editing at Scale

Editable Neural Networks


pytorch implementation of Large Scale Incremental Learning

Large Scale Incremental Learning

Continual Learning Based on OOD Detection and Task Masking

Orchestrate Latent Expertise: Advancing Online Continual Learning with
  Multi-Level Supervision and Reverse Self-Distillation

Online Continual Learning via Logit Adjusted Softmax


Execution‐Cache‐Memory modeling and performance tuning of sparse matrix‐vector multiplication and Lattice quantum chromodynamics on A64FX

Performance Modeling of Streaming Kernels and Sparse Matrix-Vector Multiplication on A64FX

PROCEEDINGS OF 2020 IEEE/ACM PERFORMANCE MODELING, BENCHMARKING AND SIMULATION OF HIGH PERFORMANCE COMPUTER SYSTEMS (PMBS 2020)

102 PFLOPS Lattice QCD quark solver on Fugaku

Grid on QPACE 4

Comparing OpenMP Implementations With Applications Across A64FX Platforms

Multigrid Solver on Fugaku

CloverLeaf on Intel Multi-Core CPUs: A Case Study in Write-Allocate Evasion

Bridge++ 2.0: Benchmark results on supercomputer Fugaku

Proceedings of The 39th International Symposium on Lattice Field Theory — PoS(LATTICE2022)

Wilson matrix kernel for lattice QCD on A64FX architecture

Proceedings of the HPC Asia 2023 Workshops

Explainable Port Mapping Inference with Sparse Performance Counters for
  AMD's Zen Architectures


Visual Navigation with Spatial Attention

Deep Residual Learning for Image Recognition

Visual Semantic Navigation using Scene Priors

Learning to Learn How to Learn: Self-Adaptive Visual Navigation Using Meta-Learning


Quick Draw Irregular Mask Dataset

Image Inpainting for Irregular Holes Using Partial Convolutions

Efficient texture-aware multi-GAN for image inpainting

Pixel-wise Dense Detector for Image Inpainting

A Benchmark for Inpainting of Clothing Images with Irregular Holes

Texture-aware Multi-resolution Image Inpainting.

Facial image inpainting for big data using an effective attention mechanism and a convolutional neural network


Repository for the Stanford Knee MRI Multi-Task Evaluation (SKM-TEA) Dataset

SKM-TEA: A Dataset for Accelerated MRI Reconstruction with Dense Image Labels for Quantitative Clinical Evaluation

Improving Data-Efficiency and Robustness of Medical Imaging Segmentation Using Inpainting-Based Self-Supervised Learning

Data and Physics Driven Learning Models for Fast MRI -- Fundamentals and Methodologies from CNN, GAN to Attention and Transformers


Creative Commons Attribution 4.0 International

Repository for MuSiQue: Multi-hop Questions via Single-hop Question Composition, TACL 2022

SQuAD: 100,000+ Questions for Machine Comprehension of Text

Zero-Shot Relation Extraction via Reading Comprehension

MLQA: Evaluating Cross-lingual Extractive Question Answering

MuSiQue: Multihop Questions via Single-hop Question Composition

LongLLMLingua: Accelerating and Enhancing LLMs in Long Context Scenarios via Prompt Compression

Causal Prompting: Debiasing Large Language Model Prompting based on
  Front-Door Adjustment


Conservative Q Learning on top of SAC

Soft Actor-Critic Algorithms and Applications

Conservative Q-Learning for Offline Reinforcement Learning

Offline Reinforcement Learning with Implicit Q-Learning

Planning with Diffusion for Flexible Behavior Synthesis

Offline Reinforcement Learning via High-Fidelity Generative Behavior Modeling

CORL: Research-oriented Deep Offline Reinforcement Learning Library

Offline RL with No OOD Actions: In-Sample Learning via Implicit Value Regularization

When to Trust Your Simulator: Dynamics-Aware Hybrid Offline-and-Online Reinforcement Learning

Survival Instinct in Offline Reinforcement Learning

Offline Reinforcement Learning at Multiple Frequencies


A Small RISC-V Virtual Machine


an easy deindex tool for illumina multiple barcodes sequencing

Integrative single-cell analysis of transcriptional and epigenetic states in the human adult brain

deML: robust demultiplexing of Illumina sequences using a likelihood-based approach

Schwann cell precursors represent a neural crest‐like state with biased multipotency


The Odds are Odd: A Statistical Test for Detecting Adversarial Examples

A General Framework For Detecting Anomalous Inputs to DNN Classifiers

Beware the Black-Box: On the Robustness of Recent Defenses to Adversarial Examples

Adversarial Examples Detection With Bayesian Neural Network


ATOM3D: Tasks On Molecules in Three Dimensions

Molecular Mechanics-Driven Graph Neural Network with Multiplex Graph for Molecular Structures

Pre‐Training of Equivariant Graph Matching Networks with Conformation Flexibility for Drug Binding


Source code for the dissertation: "Multi-Pass Deep Q-Networks for Reinforcement Learning with Parameterised Action Spaces"

Deep Reinforcement Learning in Parameterized Action Space

Reinforcement Learning with Parameterized Actions

Parametrized Deep Q-Networks Learning: Reinforcement Learning with Discrete-Continuous Hybrid Action Space

Multi-Pass Q-Networks for Deep Reinforcement Learning with Parameterised Action Spaces

Traffic Signal Control Using Hybrid Action Space Deep Reinforcement Learning

HyAR: Addressing Discrete-Continuous Action Reinforcement Learning via Hybrid Action Representation


Benchmarks for the Unit Commitment Problem

Applying reinforcement learning and tree search to the unit commitment problem

Convex Polar Second-Order Taylor Approximation of AC Power Flows: A Unit Commitment Study


Official code for ICML 2022: Open-Sampling: Exploring Out-of-Distribution Data for Re-balancing Long-tailed Datasets

Mitigating Neural Network Overconfidence with Logit Normalization

Open-set Label Noise Can Improve Robustness Against Inherent Label Noise

Open-Sampling: Exploring Out-of-Distribution data for Re-balancing Long-tailed datasets


Transformer encoder-decoder for emotion detection in dialogues

Topic-Driven and Knowledge-Aware Transformer for Dialogue Emotion Detection

CoMPM: Context Modeling with Speaker's Pre-trained Memory Tracking for Emotion Recognition in Conversation

Revisiting Disentanglement and Fusion on Modality and Context in Conversational Multimodal Emotion Recognition

DualGATs: Dual Graph Attention Networks for Emotion Recognition in Conversations


Official repository for Local Learning Matters: Rethinking Data Heterogeneity in Federated Learning [CVPR 2022 Oral, Best Paper Finalist]

Preservation of the Global Knowledge by Not-True Distillation in Federated Learning

Multimodal Federated Learning in Healthcare: a review


[CVPR 2022] Official CoTTA Code for our paper Continual Test-Time Domain Adaptation

Continual Test-Time Domain Adaptation

NOTE: Robust Continual Test-time Adaptation Against Temporal Correlation

Robust Test-Time Adaptation in Dynamic Scenarios

EcoTTA: Memory-Efficient Continual Test-time Adaptation via Self-distilled Regularization

DELTA: degradation-free fully test-time adaptation

RDumb: A simple approach that questions our progress in continual test-time adaptation

Towards Open-Set Test-Time Adaptation Utilizing the Wisdom of Crowds in Entropy Minimization

SoTTA: Robust Test-Time Adaptation on Noisy Data Streams

Test-Time Model Adaptation with Only Forward Passes

Each Test Image Deserves A Specific Prompt: Continual Test-Time Adaptation for 2D Medical Image Segmentation


Narcissus: A Practical Clean-Label Backdoor Attack with Limited Information

Sleeper Agent: Scalable Hidden Trigger Backdoors for Neural Networks Trained from Scratch

Untargeted Backdoor Watermark: Towards Harmless and Stealthy Dataset Copyright Protection


Graph Representation Learning via Graphical Mutual Information Maximization

Deep Graph Infomax

Graph Self-Supervised Learning: A Survey

Self-Supervised Learning on Graphs: Contrastive, Generative, or Predictive

Geometric Graph Representation Learning via Maximizing Rate Reduction

Unsupervised Network Embedding Beyond Homophily

ASWT-SGNN: Adaptive Spectral Wavelet Transform-based Self-Supervised Graph Neural Network


Code for GroupIM: A Mutual Information Maximization Framework for Neural Group Recommendation (SIGIR 2020)

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

ConsRec: Learning Consensus Behind Interactions for Group Recommendation

Deep Reinforcement Learning based Group Recommender System

Sparsity-aware neural user behavior modeling in online interaction platforms


Conceptual 12M is a dataset containing (image-URL, caption) pairs collected for vision-and-language pre-training.

Conceptual 12M: Pushing Web-Scale Image-Text Pre-Training To Recognize Long-Tail Visual Concepts

Supervision Exists Everywhere: A Data Efficient Contrastive Language-Image Pre-training Paradigm

CyCLIP: Cyclic Contrastive Language-Image Pretraining

Multimodal Masked Autoencoders Learn Transferable Representations

NusaCrowd: Open Source Initiative for Indonesian NLP Resources

Multimodal foundation models are better simulators of the human brain


ellipsenm: Ecological niche’s characterization using ellipsoids

Geographic potential of the world’s largest hornet,Vespa mandariniaSmith (Hymenoptera: Vespidae), worldwide and particularly in North America

A simulation-based method for selecting calibration areas for ecological niche models and species distribution models

Non-overlapping climatic niches and biogeographic barriers explain disjunct distributions of continental Urania moths

Ecological niche and potential geographic distributions of Dermacentor marginatus and Dermacentor reticulatus (Acari: Ixodidae) under current and future climate conditions

Out of sight, out of mind: Phylogenetic and taxonomic gaps imply great underestimations of the species’ vulnerability to global climate change

Perspectives in Ecology and Conservation

Assessing the Effectiveness of Correlative Ecological Niche Model Temporal Projection through Floristic Data

Broad-scale factors shaping the ecological niche and geographic distribution of Spirodela polyrhiza

Predicting climate-driven distribution shifts inHyalomma marginatum(Ixodidae)

New Distributional Records and Characterization of the Climatic Niche of Lepturges (Lepturges) limpidus Bates, 1872 (Coleoptera, Cerambycidae): Sink or Source Population?


A PyTorch implementation of Mnemonic Reader for the Machine Comprehension task

Reading Wikipedia to Answer Open-Domain Questions

Machine Comprehension Using Match-LSTM and Answer Pointer

Reinforced Mnemonic Reader for Machine Reading Comprehension

Can Small and Synthetic Benchmarks Drive Modeling Innovation? A Retrospective Study of Question Answering Modeling Approaches.

Do Question Answering Modeling Improvements Hold Across Benchmarks?


An Xtext DSL for EMF metamodels refactoring and migration

An executable metamodel refactoring catalog

Addressing the trade off between smells and quality when refactoring class diagrams

Supporting safe metamodel evolution with edelta

International Journal on Software Tools for Technology Transfer (STTT)


[ICLR 2019] Learning Factorized Multimodal Representations

MISA: Modality-Invariant and -Specific Representations for Multimodal Sentiment Analysis

MultiBench: Multiscale Benchmarks for Multimodal Representation Learning


[MIDL 2021] Learning Diffeomorphic and Modality-invariant Registration using B-splines

Fourier-Net: Fast Image Registration with Band-limited Deformation

Arbitrary Order Total Variation for Deformable Image Registration

Fourier-Net+: Leveraging Band-Limited Representation for Efficient 3D Medical Image Registration


[ICLR 2020] A repository for extremely fast adversarial training using FGSM

Cyclical Learning Rates for Training Neural Networks

Adversarial Training for Free!

Fast is better than free: Revisiting adversarial training

On Evaluating Adversarial Robustness

Bag of Tricks for Adversarial Training

Boosting Adversarial Training with Hypersphere Embedding

Transferring Adversarial Robustness Through Robust Representation Matching

Data-Efficient Double-Win Lottery Tickets from Robust Pre-training

Efficient Adversarial Training With Data Pruning


Pytorch implementation of “Recursive Non-Autoregressive Graph-to-Graph Transformer for Dependency Parsing with Iterative Refinement”

Deep Biaffine Attention for Neural Dependency Parsing

75 Languages, 1 Model: Parsing Universal Dependencies Universally

A Survey on Non-Autoregressive Generation for Neural Machine Translation and Beyond

Transactions of the Association for Computational Linguistics

Graph Refinement for Coreference Resolution

Transformers as Graph-to-Graph Models


ProtoTrees: Neural Prototype Trees for Interpretable Fine-grained Image Recognition, published at CVPR2021

Interpretable Image Classification with Differentiable Prototypes Assignment

Visual correspondence-based explanations improve AI robustness and human-AI team accuracy

Interpretability Benchmark for Evaluating Spatial Misalignment of Prototypical Parts Explanations


Data and code used in the 2015 ACL paper, "Ground Truth for Grammatical Error Correction Metrics"

Transforming Delete, Retrieve, Generate Approach for Controlled Text Style Transfer

Is ChatGPT a Highly Fluent Grammatical Error Correction System? A Comprehensive Evaluation

On Variational Learning of Controllable Representations for Text without Supervision

Grammatical Error Correction: A Survey of the State of the Art

Learning to Ask Unanswerable Questions for Machine Reading Comprehension

GLEU Without Tuning

Attention-based Encoder-Decoder Networks for Spelling and Grammatical Error Correction

A Reassessment of Reference-Based Grammatical Error Correction Metrics

A Self-Refinement Strategy for Noise Reduction in Grammatical Error Correction

Towards standardizing Korean Grammatical Error Correction: Datasets and Annotation


Constrained optimization toolkit for PyTorch

Cheap Orthogonal Constraints in Neural Networks: A Simple Parametrization of the Orthogonal and Unitary Group

Kantorovich Strikes Back! Wasserstein GANs are not Optimal Transport?

Machine learning universal bosonic functionals

Geometric Optimisation on Manifolds with Applications to Deep Learning


Fast Correlation Function Calculator

The completed SDSS-IV extended Baryon Oscillation Spectroscopic Survey: 1000 multi-tracer mock catalogues with redshift evolution and systematics for galaxies and quasars of the final data release

Monthly Notices of the Royal Astronomical Society

BOSS Correlation Function analysis from the Effective Field Theory of Large-Scale Structure

Updated constraints from the effective field theory analysis of the BOSS power spectrum on early dark energy

Consistency of effective field theory analyses of the BOSS power spectrum

The completed SDSS-IV extended Baryon Oscillation Spectroscopic Survey: cosmological implications from multitracer BAO analysis with galaxies and voids

BOSS full-shape analysis from the EFTofLSS with exact time dependence

The DESI N-body Simulation Project II: Suppressing Sample Variance with Fast Simulations

Zenodo (CERN European Organization for Nuclear Research)

Model BOSS & eBOSS Luminous Red Galaxies at 0.2 < z < 1.0 using SubHalo Abundance Matching with 3 parameters

Monthly notices of the Royal Astronomical Society

Fast correlation function calculator

Cosmic void exclusion models and their impact on the distance scale measurements from large scale structure


Challenges in Data-to-Document Generation

A Survey on Document-level Neural Machine Translation: Methods and Evaluation

Revisiting Challenges in Data-to-Text Generation with Fact Grounding

International Conference on Natural Language Generation

Stepwise Extractive Summarization and Planning with Structured Transformers

A Survey on Document-level Machine Translation: Methods and Evaluation

Improving Encoder by Auxiliary Supervision Tasks for Table-to-Text Generation

Enhancing Content Planning for Table-to-Text Generation with Data Understanding and Verification

TLM: Token-Level Masking for Transformers


EEG-Based Emotion Recognition Using Regularized Graph Neural Networks

HetEmotionNet: Two-Stream Heterogeneous Graph Recurrent Neural Network for Multi-modal Emotion Recognition


Any Way to Show  Multi genomic Synteny

NGenomeSyn: an easy-to-use and flexible tool for publication-ready visualization of syntenic relationships across multiple genomes

Genomic analyses of rice bean landraces reveal adaptation and yield related loci to accelerate breeding

Differences in pseudogene evolution contributed to the contrasting flavors of turnip and Chiifu, two Brassica rapa subspecies

Integrated analyses reveal evolutionarily conserved and specific injury response genes in dorsal root ganglion

Complete Mitogenome and Phylogenetic Analysis of the Carthamus tinctorius L.


Source code and dataset for "Difficulty-controllable Multi-hop Question Generation From Knowledge Graphs"

Difficulty-Controllable Multi-hop Question Generation from Knowledge Graphs

Toward Subgraph-Guided Knowledge Graph Question Generation With Graph Neural Networks

Prompting Large Language Models with Chain-of-Thought for Few-Shot Knowledge Base Question Generation


A PyTorch implementation of "TasNet: Surpassing Ideal Time-Frequency Masking for Speech Separation" (see recipes in aps framework https://github.com/funcwj/aps)

Conv-TasNet: Surpassing Ideal Time–Frequency Magnitude Masking for Speech Separation

IEEE/ACM transactions on audio, speech, and language processing

PHASEN: A Phase-and-Harmonics-Aware Speech Enhancement Network

Improving speaker discrimination of target speech extraction with time-domain SpeakerBeam

Time Domain Audio Visual Speech Separation

Improving noise robust automatic speech recognition with single-channel time-domain enhancement network

End-to-End Training of Time Domain Audio Separation and Recognition

DESNet: A Multi-channel Network for Simultaneous Speech Dereverberation, Enhancement and Separation

Multi-Channel Target Speech Extraction with Channel Decorrelation and Target Speaker Adaptation

Attention-based scaling adaptation for target speech extraction

SpeakerBeam-SS: Real-time Target Speaker Extraction with Lightweight Conv-TasNet and State Space Modeling


DeepXplore code release

DeepXplore: Automated Whitebox Testing of Deep Learning Systems

Symposium on Operating Systems Principles

Guiding Deep Learning System Testing using Surprise Adequacy

Verification for Machine Learning, Autonomy, and Neural Networks Survey

Towards Improved Testing For Deep Learning

Taking Care of the Discretization Problem: A Comprehensive Study of the Discretization Problem and a Black-Box Adversarial Attack in Discrete Integer Domain

Provably Valid and Diverse Mutations of Real-World Media Data for DNN Testing

Excitement surfeited turns to errors: Deep learning testing framework based on excitable neurons


TIMERS: Document-level Temporal Relation Extraction

Severing the Edge Between Before and After: Neural Architectures for Temporal Ordering of Events

Easy, Reproducible and Quality-Controlled Data Collection with CROWDAQ

Discriminative Reasoning with Sparse Event Representation for Document-level Event-Event Relation Extraction

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

Temporal Relation Extraction with Joint Semantic and Syntactic Attention

Computational intelligence and neuroscience

NarrativeTime: Dense Temporal Annotation on a Timeline


MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree

The timescale of early land plant evolution

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

A draft genome of the medicinal plant Cremastra appendiculata (D. Don) provides insights into the colchicine biosynthetic pathway

A molecular timescale for the origin of red algal-derived plastids


A fork of Prodigal meant to improve gene calling for giant viruses and viruses that use alternative genetic codes

Distinct and rich assemblages of giant viruses in Arctic and Antarctic lakes

Decoding huge phage diversity: a taxonomic classification of Lak megaphages

Predicting stop codon reassignment improves functional annotation of bacteriophages

bioRxiv : the preprint server for biology

Driving through stop signs: predicting stop codon reassignment improves functional annotation of bacteriophages


False discovery rate regression

Covariate Adaptive False Discovery Rate Control With Applications to Omics-Wide Multiple Testing

ZAP: Z-value Adaptive Procedures for False Discovery Rate Control with Side Information

Two-Component Mixture Model in the Presence of Covariates


Code and data used in The Great Repertoire Project

Commonality despite exceptional diversity in the baseline human antibody repertoire

Landscape of Non-canonical Cysteines in Human VH Repertoire Revealed by Immunogenetic Analysis

Modeling and predicting the overlap of B- and T-cell receptor repertoires in healthy and SARS-CoV-2 infected individuals

Regulatory Approved Monoclonal Antibodies Contain Framework Mutations Predicted From Human Antibody Repertoires


Conversion from tetrahedra (triangles) to hexahedra (quadrangles)

A geometric multiscale model for the numerical simulation of blood flow in the human left heart

Discrete and Continuous Dynamical Systems - S

Optimization of solidification in die casting using numerical simulations and machine learning

Quantitative reconstruction of time-varying 3D cell forces with traction force optical coherence microscopy

Impact of Atrial Fibrillation on Left Atrium Haemodynamics: A Computational Fluid Dynamics Study

Finite volume simulation framework for die casting with uncertainty quantification

Genetic Algorithm based Multi-Objective Optimization of Solidification in Die Casting using Deep Neural Network as Surrogate Model


This implements training of popular model architectures, such as AlexNet, ResNet and VGG on the ImageNet dataset(Now we supported alexnet, vgg, resnet, squeezenet, densenet)

Deep Residual Learning for Image Recognition

Very Deep Convolutional Networks for Large-Scale Image Recognition

Densely Connected Convolutional Networks

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

On Convergence of Training Loss Without Reaching Stationary Points.


Deep Keyphrase Generation with Pre-trained Language Models

Pre-trained Language Models for Keyphrase Generation: A Thorough Empirical Study

Rethinking Model Selection and Decoding for Keyphrase Generation with Pre-trained Sequence-to-Sequence Models

On Leveraging Encoder-only Pre-trained Language Models for Effective
  Keyphrase Generation


NLP pipelines for Tagalog using spaCy

Developing a Named Entity Recognition Dataset for Tagalog


STGAN: A Unified Selective Transfer Network for Arbitrary Image Attribute Editing

DeepFakes and Beyond: A Survey of Face Manipulation and Fake Detection

Countering Malicious DeepFakes: Survey, Battleground, and Horizon

MagGAN: High-Resolution Face Attribute Editing with Mask-Guided Generative Adversarial Network

MaskFaceGAN: High-Resolution Face Editing With Masked GAN Latent Code Optimization

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

An Introduction to Digital Face Manipulation

Handbook of Digital Face Manipulation and Detection

High Resolution Face Editing with Masked GAN Latent Code Optimization

Human-interpretable model explainability on high-dimensional data

Can GAN-induced Attribute Manipulations Impact Face Recognition?


Utilities to perform Uncertainty Quantification on Keras Models

Dropout as a Bayesian Approximation: Representing Model Uncertainty in Deep Learning

Simple and Scalable Predictive Uncertainty Estimation using Deep Ensembles

DropConnect Is Effective in Modeling Uncertainty of Bayesian Deep Networks

Deep Sub-Ensembles for Fast Uncertainty Estimation in Image Classification

Design Patterns for Machine Learning Based Systems with Human-in-the-Loop

Exploring the Limits of Epistemic Uncertainty Quantification in Low-Shot Settings


R package for testing and visualizing gene list overlaps

Epigenetic reprogramming rewires transcription during the alternation of generations in Arabidopsis

Ustilago maydis effector Jsi1 interacts with Topless corepressor, hijacking plant jasmonate/ethylene signaling

Coupling of autism genes to tissue-wide expression and dysfunction of synapse, calcium signalling and transcriptional regulation

Genetically-regulated transcriptomics & copy number variation of proctitis points to altered mitochondrial and DNA repair mechanisms in individuals of European ancestry

Delineation and Modulation of the Natural Killer Cell Transcriptome in Rhesus Macaques During ZIKV and SIV Infections

Frontiers in cellular and infection microbiology

Ethanol-induced transcriptional and translational changes in Aldh1l1-Egfp/Rpl10a cortical astrocyte cultures


Detecting somatic mutations and predicting tumor-specific neo-antigens

TSNAD: an integrated software for cancer somatic mutation and tumour-specific neoantigen detection

Main Strategies for the Identification of Neoantigens

Computational cancer neoantigen prediction: current status and recent advances

TSNAD v2.0: A one-stop software solution for tumor-specific neoantigen detection

Computational and structural biotechnology journal


Search Engines with Autoregressive Language models

Autoregressive Search Engines: Generating Substrings as Document Identifiers

A Neural Corpus Indexer for Document Retrieval

Exploring the Practicality of Generative Retrieval on Dynamic Corpora

Detrimental Contexts in Open-Domain Question Answering


FactSumm: Factual Consistency Scorer for Abstractive Summarization

Asking and Answering Questions to Evaluate the Factual Consistency of Summaries

FEQA: A Question Answering Evaluation Framework for Faithfulness Assessment in Abstractive Summarization

Meeting of the Association for Computational Linguistics

Assessing The Factual Accuracy of Generated Text

The Factual Inconsistency Problem in Abstractive Text Summarization: A Survey

WebBrain: Learning to Generate Factually Correct Articles for Queries by Grounding on Large Web Corpus

CO2Sum:Contrastive Learning for Factual-Consistent Abstractive Summarization

Optimizing Factual Accuracy in Text Generation through Dynamic Knowledge Selection

Multiple View Summarization Framework for Social Media

The International FLAIRS Conference Proceedings

Know When To Stop: A Study of Semantic Drift in Text Generation


Repo for our CVPR Paper: Watch your Up-Convolution: CNN Based Generative Deep Neural Networks areFailing to Reproduce Spectral Distributions

Watch your Up-Convolution: CNN Based Generative Deep Neural Networks are Failing to Reproduce Spectral Distributions

Unmasking DeepFakes with simple Features

Countering Malicious DeepFakes: Survey, Battleground, and Horizon

A Closer Look at Fourier Spectrum Discrepancies for CNN-generated Images Detection

DeepFake-o-meter: An Open Platform for DeepFake Detection

F-Drop&Match: GANs with a Dead Zone in the High-Frequency Domain


Robust and Efficient Medical Imaging with Self-Supervision

A General-Purpose Self-Supervised Model for Computational Pathology


Handy PyTorch implementation of Federated Learning (for your painless research)

Communication-Efficient Learning of Deep Networks from Decentralized Data

Federated Optimization in Heterogeneous Networks

LEAF: A Benchmark for Federated Settings

Adaptive Federated Optimization

Measuring the Effects of Non-Identical Data Distribution for Federated Visual Classification


Convolutional nets which can take molecular graphs of arbitrary size as input.

Convolutional Networks on Graphs for Learning Molecular Fingerprints

Deep Learning on Graphs: A Survey

Recent advances and applications of deep learning methods in materials science

To Embed or Not: Network Embedding as a Paradigm in Computational Biology

Integrating Artificial Intelligence for Drug Discovery in the Context of Revolutionizing Drug Delivery

Tartarus: A Benchmarking Platform for Realistic And Practical Inverse Molecular Design

Uncertainty quantification of molecular property prediction with Bayesian neural networks

State of the Art and Potentialities of Graph-level Learning

Uncertainty quantification of molecular property prediction using Bayesian neural network models

A Systematic Review of Deep Graph Neural Networks: Challenges, Classification, Architectures, Applications & Potential Utility in Bioinformatics


Multimodal Mixture-of-Experts VAE

Variational Mixture-of-Experts Autoencoders for Multi-Modal Deep Generative Models

Self-supervised Disentanglement of Modality-Specific and Shared Factors Improves Multimodal Generative Models

Multimodal Variational Autoencoders for Semi-Supervised Learning: In Defense of Product-of-Experts

How to Sense the World: Leveraging Hierarchy in Multimodal Perception for Robust Reinforcement Learning Agents

Discriminative Multimodal Learning via Conditional Priors in Generative Models

Pipeline-Invariant Representation Learning for Neuroimaging

Streamlining Multimodal Data Fusion in Wireless Communication and Sensor Networks

Improving Multimodal Joint Variational Autoencoders through Normalizing Flows and Correlation Analysis


Official Implementation of Mockingjay in Pytorch

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

Representation Learning with Contrastive Predictive Coding

An Unsupervised Autoregressive Model for Speech Representation Learning

Mockingjay: Unsupervised Speech Representation Learning with Deep Bidirectional Transformer Encoders

International Conference on Acoustics, Speech, and Signal Processing


[ECCV 2024] ShapeLLM: Universal 3D Object Understanding for Embodied Interaction

3D-LLM: Injecting the 3D World into Large Language Models

PointLLM: Empowering Large Language Models to Understand Point Clouds

Point-Bind & Point-LLM: Aligning Point Cloud with Multi-modality for 3D Understanding, Generation, and Instruction Following


Translation of the mtrf-Toolbox for Matlab (see https://github.com/mickcrosse/mTRF-Toolbox).

On the interpretation of weight vectors of linear models in multivariate neuroimaging

The Multivariate Temporal Response Function (mTRF) Toolbox: A MATLAB Toolbox for Relating Neural Signals to Continuous Stimuli

Congruent Visual Speech Enhances Cortical Entrainment to Continuous Auditory Speech in Noise-Free Conditions

The Journal of neuroscience : the official journal of the Society for Neuroscience

Towards obtaining spatiotemporally precise responses to continuous sensory stimuli in humans: A general linear modeling approach to EEG

From pre-processing to advanced dynamic modeling of pupil data


PyTorch Implementation of 2D and 3D 'squeeze and excitation' blocks for Fully Convolutional Neural Networks

Squeeze-and-Excitation Networks

Concurrent Spatial and Channel Squeeze & Excitation in Fully Convolutional Networks

Parameter Prediction for Unseen Deep Architectures

`Project & Excite' Modules for Segmentation of Volumetric Medical Scans

Recalibrating 3D ConvNets With Project & Excite

Recalibrating Fully Convolutional Networks with Spatial and Channel 'Squeeze & Excitation' Blocks


(CVPR 2021) PRTR: Pose Recognition with Cascade Transformers

End-to-End Object Detection with Transformers

Deep High-Resolution Representation Learning for Visual Recognition

Vision-Based Human Pose Estimation via Deep Learning: A Survey

IEEE Transactions on Human-Machine Systems

Video-Based Automatic Baby Motion Analysis for Early Neurological Disorder Diagnosis: State of the Art and Future Directions


The ANI-1ccx and ANI-1x data sets, coupled-cluster and density functional theory properties for organic molecules.

Less is more: Sampling chemical space with active learning

Approaching coupled cluster accuracy with a general-purpose neural network potential through transfer learning

Accurate and transferable multitask prediction of chemical properties with an atoms-in-molecules neural network

The ANI-1ccx and ANI-1x Data Sets, Coupled-Cluster and Density Functional Theory Properties for Molecules


RAD: Reinforcement Learning with Augmented Data

SUNRISE: A Simple Unified Framework for Ensemble Learning in Deep Reinforcement Learning

State Entropy Maximization with Random Encoders for Efficient Exploration

An Empirical Investigation of Representation Learning for Imitation

Learning Representations for Pixel-based Control: What Matters and Why?

Learning Domain Invariant Representations in Goal-conditioned Block MDPs


UBC ARBERT and MARBERT Deep Bidirectional Transformers for Arabic

ARBERT & MARBERT: Deep Bidirectional Transformers for Arabic

Arabic fake news detection based on deep contextualized embedding models

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

A Weak Supervised Transfer Learning Approach for Sentiment Analysis to the Kuwaiti Dialect

Workshop on Arabic Natural Language Processing

Building an Ensemble of Transformer Models for Arabic Dialect Classification and Sentiment Analysis


A new test set for ImageNet

Very Deep Convolutional Networks for Large-Scale Image Recognition

Do ImageNet Classifiers Generalize to ImageNet?

From ImageNet to Image Classification: Contextualizing Progress on Benchmarks

Model Similarity Mitigates Test Set Overuse

Identifying Statistical Bias in Dataset Replication

On the Strong Correlation Between Model Invariance and Generalization

Confidence and Dispersity Speak: Characterising Prediction Matrix for Unsupervised Accuracy Estimation

DMLR: Data-centric Machine Learning Research -- Past, Present and Future

The Entropy Enigma: Success and Failure of Entropy Minimization

Sequential Normalization: Embracing Smaller Sample Sizes for Normalization


Imbalanced learning tool for imbalanced recognition and segmentation

Improving Calibration for Long-Tailed Recognition

Parametric Contrastive Learning

Vision GNN: An Image is Worth Graph of Nodes

ResLT: Residual Learning for Long-tailed Recognition

Understanding Imbalanced Semantic Segmentation Through Neural Collapse

Generalized Parametric Contrastive Learning

Region Rebalance for Long-Tailed Semantic Segmentation

Rebalanced Siamese Contrastive Mining for Long-Tailed Recognition


APA Regression Net - Predict and Engineer Alternative Polyadenylation

A Deep Neural Network for Predicting and Engineering Alternative Polyadenylation

Alternative polyadenylation: methods, mechanism, function, and role in cancer

Journal of experimental & clinical cancer research : CR

A Two-Layered Targeting Mechanism Underlies Nuclear RNA Sorting by the Human Exosome

Fast activation maximization for molecular sequence design

SCAPTURE: a deep learning-embedded pipeline that captures polyadenylation information from 3′ tag-based RNA-seq of single cells

Leveraging omic features with F3UTER enables identification of unannotated 3’UTRs for synaptic genes


A pytorch wrapper for LF-MMI training and parallel training in Kaldi

Automatic Speech Recognition Benchmark for Air-Traffic Communications

Pkwrap: a PyTorch Package for LF-MMI Training of Acoustic Models

Lattice-Free MMI Adaptation Of Self-Supervised Pretrained Acoustic Models

Quantization of Acoustic Model Parameters in Automatic Speech Recognition Framework

Speech Activity Detection Based on Multilingual Speech Recognition System


Morphological analyzer for Russian and English languages based on neural networks and dictionary-lookup systems.

Multilingual Part-of-Speech Tagging with Bidirectional Long Short-Term Memory Models and Auxiliary Loss

Lexicon-based Methods vs. BERT for Text Sentiment Analysis

Algorithms for Automatic Accentuation and Transcription of Russian Texts in Speech Recognition Systems


Collection of tools  for the analysis of CpG data

Direct haplotype-resolved 5-base HiFi sequencing for genome-wide profiling of hypermethylation outliers in a rare disease cohort

High Coverage Highly Accurate Long-Read Sequencing of a Mouse Neuronal Cell Line Using the PacBio Revio Sequencer

Direct transposition of native DNA for sensitive multimodal single-molecule sequencing

Synchronized long-read genome, methylome, epigenome, and transcriptome for resolving a Mendelian condition

A haplotype-resolved view of human gene regulation


Python package for measuring memorization in LLMs.

TLDR: Extreme Summarization of Scientific Documents

Do Membership Inference Attacks Work on Large Language Models?

Pandora's White-Box: Increased Training Data Leakage in Open LLMs


An easily extensible C++ library for (suboptimally) computing the graph edit distance between attributed graphs.

Improved local search for graph edit distance

New Techniques for Graph Edit Distance Computation

Scalable generalized median graph estimation and its manifold use in bioinformatics, clustering, classification, and indexing

Upper Bounding Graph Edit Distance Based on Rings and Machine Learning

International journal of pattern recognition and artificial intelligence

Upper Bounding GED via Transformations to LSAPE Based on Rings and Machine Learning

Some Algorithms on Exact, Approximate and Error-Tolerant Graph Matching


Efficient Spiking Neural Network framework, built on top of PyTorch for GPU acceleration

Spiking Neural Networks and Their Applications: A Review

Neuromorphic control for optic-flow-based landing of MAVs using the Loihi processor

Evolved Neuromorphic Control for High Speed Divergence-Based Landings of MAVs

International Conference on Robotics and Automation

Brain Inspired Computing: A Systematic Survey and Future Trends

A toolbox for neuromorphic sensing in robotics

Frameworks for SNNs: a Review of Data Science-oriented Software and an Expansion of SpykeTorch


XAI - An eXplainability toolbox for machine learning

One Explanation Does Not Fit All: A Toolkit and Taxonomy of AI Explainability Techniques

Trustworthy AI: From Principles to Practices

Software engineering for Responsible AI: An empirical study and operationalised patterns

Building Trustworthy AI Solutions: A Case for Practical Solutions for Small Businesses

IEEE Transactions on Artificial Intelligence


R package for plotting Whittaker biomes with ggplot2

Deep learning and citizen science enable automated plant trait predictions from photographs

Climate change and elevated CO&lt;sub&gt;2&lt;/sub&gt; favor forest over savanna under different future scenarios in South Asia

Global Vegetation Project: An Interactive Online Map of Open-Access Vegetation Photos

C4 trees have a broader niche than their close C3 relatives


Tools for evaluating the performance of MT metrics on data from recent WMT metrics shared tasks.

GEMBA-MQM: Detecting Translation Quality Error Spans with GPT-4

TIM: Teaching Large Language Models to Translate with Comparison

Ties Matter: Meta-Evaluating Modern Metrics with Pairwise Accuracy and Tie Calibration

Not All Metrics Are Guilty: Improving NLG Evaluation by Diversifying References

SESCORE2: Learning Text Generation Evaluation via Synthesizing Realistic Mistakes

Learning Evaluation Models from Large Language Models for Sequence Generation

TasTe: Teaching Large Language Models to Translate through Self-Reflection

Test-time Adaptation for Machine Translation Evaluation by Uncertainty Minimization

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

Can Automatic Metrics Assess High-Quality Translations?


Open Source Light Field Toolbox for Super-Resolution

NTIRE 2023 Challenge on Light Field Image Super-Resolution: Dataset, Methods and Results

Advanced Scalability for Light Field Image Coding

Diffusion-based Light Field Synthesis


How Does Pre-Trained Wav2Vec 2.0 Perform on Domain-Shifted Asr? an Extensive Benchmark on Air Traffic Control Communications

Automatic Speech Recognition Benchmark for Air-Traffic Communications

ATCO2 corpus: A Large-Scale Dataset for Research on Automatic Speech Recognition and Natural Language Understanding of Air Traffic Control Communications


MatchMiner:  An open source computational platform for matching genomic profiles to precision cancer medicine clinical trials

MatchMiner: an open-source platform for cancer precision medicine

Abstract 3382: MatchMiner: An open-source computational platform for genomically-driven matching of cancer patients to precision medicine clinical trials

Abstract A024: MatchMiner: An open-source computational platform for genomically-driven matching of cancer patients to precision medicine clinical trials


Julia package that downloads satellite measurements and observational data


Can Neural Networks Crack Sudoku?

OptNet: Differentiable Optimization as a Layer in Neural Networks

SATNet: Bridging deep learning and logical reasoning using a differentiable satisfiability solver

Recurrent Relational Networks

Dirichlet Diffusion Score Model for Biological Sequence Generation

Recurrent Relational Networks for complex relational reasoning

Fast and flexible design of novel proteins using graph neural networks

Controlling Neural Networks via Energy Dissipation

A Neural Network for Semigroups


BWT-based index for graphs

Computational pan-genomics: status, promises and challenges

Indexing Graphs for Path Queries with Applications in Genome Research

IEEE/ACM transactions on computational biology and bioinformatics

Succinct de Bruijn Graphs

Workshop on Algorithms in Bioinformatics

Indexing Variation Graphs

Workshop on Algorithm Engineering and Experimentation

Haplotype-aware graph indexes

Genome Informatics 2016


STORM movie analysis code

Analyzing Single Molecule Localization Microscopy Data Using Cubic Splines

Teaching deep neural networks to localize sources in super-resolution microscopy by combining simulation-based learning and unsupervised learning

Teaching deep neural networks to localize single molecules for super-resolution microscopy

Large-FOV 3D localization microscopy by spatially variant point spread function generation


thundeR - Rapid computation and visualisation of convective parameters from rawinsonde and NWP data


Visual Dialog: Light-weight Transformer for Many Inputs (ECCV 2020)

Efficient Attention Mechanism for Visual Dialog that can Handle All the Interactions between Multiple Inputs

GoG: Relation-aware Graph-over-Graph Network for Visual Dialog

Learning to Ground Visual Objects for Visual Dialog


Robust machine learning for responsible AI

On the Robustness of ChatGPT: An Adversarial and Out-of-distribution Perspective

Out-of-Distribution Representation Learning for Time Series Classification

Margin Calibration for Long-Tailed Visual Recognition

Improving Generalization of Adversarial Training via Robust Critical Fine-Tuning

Generalizable Low-Resource Activity Recognition with Diverse and Discriminative Representation Learning


Comprehensive list of known attack vectors and common anti-patterns

A Survey on Ethereum Systems Security: Vulnerabilities, Attacks, and Defenses

How effective are smart contract analysis tools? evaluating smart contract static analysis tools using bug injection

International Symposium on Software Testing and Analysis

Vyper: A Security Comparison with Solidity Based on Common Vulnerabilities

TokenHook: Secure ERC-20 smart contract

OpenSCV: An Open Hierarchical Taxonomy for Smart Contract Vulnerabilities

To Healthier Ethereum: A Comprehensive and Iterative Smart Contract Weakness Enumeration

Unveiling the Landscape of Smart Contract Vulnerabilities: A Detailed Examination and Codification of Vulnerabilities in Prominent Blockchains

International journal of Computer Networks & Communications


BASTA: The BAyesian STellar Algorithm

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

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

A close-in giant planet escapes engulfment by its star

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

Monthly Notices of the Royal Astronomical Society

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


R  for flood forecasting via the National Water Model

A CyberGIS Approach to Generating High-resolution Height Above Nearest Drainage (HAND) Raster for National Flood Mapping


:bug:  Legacy dragonfly plugin for large-scale climate and urban heat island modeling.


An extensible benchmark for evaluating large language models on planning

PlanBench: An Extensible Benchmark for Evaluating Large Language Models on Planning and Reasoning about Change

On the Planning Abilities of Large Language Models : A Critical Investigation

On the Planning Abilities of Large Language Models (A Critical Investigation with a Proposed Benchmark)

GPT3-to-plan: Extracting plans from text using GPT-3

AutoPlanBench: : Automatically generating benchmarks for LLM planners from PDDL


RL-Toolkit: A Research Framework for Robotics

Addressing Function Approximation Error in Actor-Critic Methods

Soft Actor-Critic Algorithms and Applications

Controlling Overestimation Bias with Truncated Mixture of Continuous Distributional Quantile Critics

Smooth Exploration for Robotic Reinforcement Learning

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


A toolkit for QC and visualization of ATAC-seq results.

Quantification, Dynamic Visualization, and Validation of Bias in ATAC-Seq Data with ataqv.

BAF60a deficiency uncouples chromatin accessibility and cold sensitivity from white fat browning

Protocol for assay of transposase accessible chromatin sequencing in non-model species

Chromatin accessibility analysis uncovers regulatory element landscape in prostate cancer progression

Ovo is a master regulator of the piRNA pathway in animal ovarian germ cells


Experimental pipeline for correcting nanopore reads

A complete bacterial genome assembled de novo using only nanopore sequencing data

Oxford Nanopore MinION Sequencing and Genome Assembly

基因组蛋白质组与生物信息学报

The genome of the soybean cyst nematode (Heterodera glycines) reveals complex patterns of duplications involved in the evolution of parasitism genes

Assessing the utility of the Oxford Nanopore MinION for snake venom gland cDNA sequencing

Constructing a Reference Genome in a Single Lab: The Possibility to Use Oxford Nanopore Technology


Extension of tensorflow with additional operators, optimizers,... used at ICG.

On instabilities of deep learning in image reconstruction and the potential costs of AI

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

On learning optimized reaction diffusion processes for effective image restoration

Deep, Deep Learning with BART


Towards Gene Expression Convolutions using Gene Interaction Graphs

Deep Learning on Graphs: A Survey

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

A Systematic Review of Deep Graph Neural Networks: Challenges, Classification, Architectures, Applications & Potential Utility in Bioinformatics


High throughput protein function annotation with Human Readable Description (HRDs) and Gene Ontology (GO) Terms.

The genome sequences of Arachis duranensis and Arachis ipaensis, the diploid ancestors of cultivated peanut

Durum wheat genome highlights past domestication signatures and future improvement targets

The genome sequence of segmental allotetraploid peanut Arachis hypogaea

Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea

The barley pan-genome reveals the hidden legacy of mutation breeding

Insight into the evolution of the Solanaceae from the parental genomes of Petunia hybrida

Towards a whole‐genome sequence for rye (Secale cereale L.)

The Plant journal : for cell and molecular biology

Cucurbit Genomics Database (CuGenDB): a central portal for comparative and functional genomics of cucurbit crops

Draft genome of spinach and transcriptome diversity of 120 Spinacia accessions

De novo assembly of the zucchini genome reveals a whole-genome duplication associated with the origin of the Cucurbita genus


An Efficient implementation of TransE and its extended models for Knowledge Representation Learning

A Survey on Knowledge Graphs: Representation, Acquisition, and Applications

IEEE transactions on neural networks and learning systems

DeepPath: A Reinforcement Learning Method for Knowledge Graph Reasoning

OpenKE: An Open Toolkit for Knowledge Embedding

Empirical Methods in Natural Language Processing

Word-Entity Duet Representations for Document Ranking

SIGIR'17: PROCEEDINGS OF THE 40TH INTERNATIONAL ACM SIGIR CONFERENCE ON RESEARCH AND DEVELOPMENT IN INFORMATION RETRIEVAL

Keyword Search on RDF Graphs - A Query Graph Assembly Approach

Learning Representation Mapping for Relation Detection in Knowledge Base Question Answering

Relation path embedding in knowledge graphs

Knowledge Embedding with Geospatial Distance Restriction for Geographic Knowledge Graph Completion

ISPRS International Journal of Geo-Information

Leveraging Prior Knowledge for Protein-Protein Interaction Extraction with Memory Network

Database : the journal of biological databases and curation

Knowledge-aware attention network for protein-protein interaction extraction


Accurately generate all possible forms of an English word e.g "election" --> "elect", "electoral", "electorate" etc.

A Lightweight Constrained Generation Alternative for Query-focused Summarization

An Extended Sequence Tagging Vocabulary for Grammatical Error Correction

Data Augmentation of Incorporating Real Error Patterns and Linguistic Knowledge for Grammatical Error Correction

Proceedings of the 25th Conference on Computational Natural Language Learning


Example Application for Microservice API Patterns (MAP) and other patterns (DDD, PoEAA, EIP)

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

Lecture notes in business information processing

EuroPLoP - Interface Responsibility Patterns: Processing Resources and Operation Responsibilities

European Conference on Pattern Languages of Programs

Detector-based component model abstraction for microservice-based systems

Zenodo (CERN European Organization for Nuclear Research)

Data-Oriented Interface Responsibility Patterns: Types of Information Holder Resources

Identifying Domain-Based Cyclic Dependencies in Microservice APIs Using Source Code Detectors

Evaluation of API Request Bundling and its Impact on Performance of Microservice Architectures

Avoiding Excessive Data Exposure Through Microservice APIs

Conformance assessment of Architectural Design Decisions on API endpoint designs derived from domain models

Combining API Patterns in Microservice Architectures: Performance and Reliability Analysis


Github repository for FDPS

Implementation and performance of FDPS: a framework for developing parallel particle simulation codes

Publications of the Astronomical Society of Japan

Fortran interface layer of the framework for developing particle simulator FDPS

Unconvergence of very-large-scale giant impact simulations

Accelerated FDPS: Algorithms to use accelerators with FDPS


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


Python package to Create, Read, Write, Edit, and Visualize GSFLOW models

Integrated hydrologic model development and postprocessing for GSFLOW using pyGSFLOW


Qclib is a quantum computing library implemented using qiskit. The focus of qclib is on preparing quantum states, but it is not limited to that.

A divide-and-conquer algorithm for quantum state preparation

Linear-depth quantum circuits for multiqubit controlled gates

Double sparse quantum state preparation

Decomposition of Multi-controlled Special Unitary Single-Qubit Gates

Low-Rank Quantum State Preparation

Linear decomposition of approximate multi-controlled single qubit gates

Implementing multi-controlled X gates using the quantum Fourier transform


Illumina analysis pipeline

An organoid biobank for childhood kidney cancers that captures disease and tissue heterogeneity

Somatic Mutations Reveal Lineage Relationships and Age-Related Mutagenesis in Human Hematopoiesis

In vivo cytidine base editing of hepatocytes without detectable off-target mutations in RNA and DNA

Reconstructing single-cell karyotype alterations in colorectal cancer identifies punctuated and gradual diversification patterns

Antiviral treatment causes a unique mutational signature in cancers of transplantation recipients

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

Molecular characterization of Barrett’s esophagus at single-cell resolution

Somatic alterations compromised molecular diagnosis of DOCK8 hyper-IgE syndrome caused by a novel intronic splice site mutation

A Single Complex Agpat2 Allele in a Patient With Partial Lipodystrophy

Preclinical Application of Conditional Reprogramming Culture System for Laryngeal and Hypopharyngeal Carcinoma

Frontiers in cell and developmental biology


Corner plots, LaTeX tables and plotting walks.

ChainConsumer 0.10.2

Dark matter haloes of massive elliptical galaxies at z ∼ 0.2 are well described by the Navarro–Frenk–White profile

The UTMOST pulsar timing programme – II. Timing noise across the pulsar population

Late-time decaying dark matter: constraints and implications for the H0-tension

Dark Energy Survey Year 1 results: Methodology and projections for joint analysis of galaxy clustering, galaxy lensing, and CMB lensing two-point functions

Sources of H0 -tension in dark energy scenarios

Milky Way Satellite Census. IV. Constraints on Decaying Dark Matter from Observations of Milky Way Satellite Galaxies

H_0 Reconstruction with Type Ia Supernovae, Baryon Acoustic Oscillation and Gravitational Lensing Time-Delay

Testing general relativity on cosmological scales at redshift z ∼ 1.5 with quasar and CMB lensing

Testing generalized scalar-tensor theories of gravity with clusters of galaxies


R interface to DATRAS trawl database web services

Evidence of stock connectivity, hybridization and misidentification in white anglerfish support the need of a genetics-informed fisheries management framework


Synthetic photometry using Astropy for HST and JWST

Where are the magnetar binary companions? Candidates from a comparison with binary population synthesis predictions

The Fast Radio Burst-emitting Magnetar SGR 1935+2154—Proper Motion and Variability from Long-term Hubble Space Telescope Monitoring

New candidates for magnetar counterparts from a deep search with theHubble Space Telescope

Optical- and UV-continuum Morphologies of Compact Radio Source Hosts

Optical- & UV-Continuum Morphologies of Compact Radio Source Hosts


Website for conversationai.github.io

Is Your Toxicity My Toxicity? Exploring the Impact of Rater Identity on Toxicity Annotation

CrowdWorkSheets: Accounting for Individual and Collective Identities Underlying Crowdsourced Dataset Annotation

Conference on Fairness, Accountability and Transparency

A Benchmark Study of the Contemporary Toxicity Detectors on Software Engineering Interactions

Automated Identification of Toxic Code Reviews Using ToxiCR

Automated Identification of Sexual Orientation and Gender Identity Discriminatory Texts from Issue Comments


DEEp Reinforcement learning framework

Combined Reinforcement Learning via Abstract Representations

On overfitting and asymptotic bias in batch reinforcement learning with partial observability

Image Retrieval with Mixed Initiative and Multimodal Feedback


Plotting and analysis tools for ARTIS simulations

3D radiative transfer kilonova modelling for binary neutron star merger simulations

Double detonations: variations in Type Ia supernovae due to different core and He shell masses -- II: synthetic observables

Self-consistent 3D Radiative Transfer for Kilonovae: Directional Spectra from Merger Simulations

Modelling the ionization state of Type Ia supernovae in the nebular phase

Monthly notices of the Royal Astronomical Society

Helium as a signature of the double detonation in Type Ia supernovae

Towards inferring the geometry of kilonovae


SimMobility production repository

An integrated microsimulation approach to land-use and mobility modeling

Assignment of a Synthetic Population for Activity-Based Modeling Employing Publicly Available Data

A Bayesian Optimization Approach for Calibrating Large-Scale Activity-Based Transport Models


LibFewShot: A Comprehensive Library for Few-shot Learning. TPAMI 2023.

LibFewShot: A Comprehensive Library for Few-Shot Learning

Does Few-shot Learning Suffer from Backdoor Attacks?


This repository will host models, modules, algorithms and applications developed by the INRC Community to run on the Intel Loihi Platform.

A Long Short-Term Memory for AI Applications in Spike-based Neuromorphic Hardware

NxTF: An API and Compiler for Deep Spiking Neural Networks on Intel Loihi

Braille letter reading: A benchmark for spatio-temporal pattern recognition on neuromorphic hardware

Static Hand Gesture Recognition for American Sign Language using Neuromorphic Hardware


PowerAPI is a Python framework for building software-defined power meters.


A curated list of awesome deep learning applications in the field of computational biology

Dermatologist-level classification of skin cancer with deep neural networks

Predicting the sequence specificities of DNA- and RNA-binding proteins by deep learning

Predicting effects of noncoding variants with deep learning–based sequence model

Deep Learning for Health Informatics

IEEE journal of biomedical and health informatics

Deep Learning in Bioinformatics

Deep learning for computational biology

The human splicing code reveals new insights into the genetic determinants of disease

A universal SNP and small-indel variant caller using deep neural networks

Reconstructing cell cycle and disease progression using deep learning

DeepLoc: prediction of protein subcellular localization using deep learning


An Active-Passive Measurement Study of TCP Performance over LTE on High-speed Rails

An Evaluation of BBR and its variants

BBRv2+: Towards balancing aggressiveness and fairness with delay-based bandwidth probing

Improvement of RTT Fairness Problem in BBR Congestion Control Algorithm by Gamma Correction

Improvement of BBRv2 Congestion Control Algorithm Based on Flow-aware ECN

Internet Congestion Control Benchmarking


Fast numerical array expression evaluator for Python, NumPy, Pandas, PyTables and more

Faster ICA by preconditioning with Hessian approximations

High performance Python for direct numerical simulations of turbulent flows

HOPE: A Python Just-In-Time compiler for astrophysical computations

Laying the foundation of the effective-one-body waveform models SEOBNRv5: improved accuracy and efficiency for spinning non-precessing binary black holes

Simple, parallel virtual machines for extreme computations

Accelerated modeling of near and far-field diffraction for coronagraphic optical systems

Space Telescopes and Instrumentation 2018: Optical, Infrared, and Millimeter Wave

Toward efficient interactions between Python and native libraries

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

Functional Decomposition: A new method for search and limit setting

Massively parallel implementation in Python of a pseudo-spectral DNS code for turbulent flows

Quantifying the Location Error of Precipitation Nowcasts


Creative Commons Attribution Share Alike 4.0 International

Publications from Trail of Bits

Manticore: A User-Friendly Symbolic Execution Framework for Binaries and Smart Contracts

SoK: Decentralized Finance (DeFi) Attacks

What are the Actual Flaws in Important Smart Contracts (and How Can We Find Them)?

Risk assessment at AGI companies: A review of popular risk assessment techniques from other safety-critical industries


the re-implementation of Score CAM with pytorch

Grad-CAM: Visual Explanations from Deep Networks via Gradient-Based Localization

International Journal of Computer Vision

Grad-CAM++: Improved Visual Explanations for Deep Convolutional Networks

Workshop on Applications of Computer Vision

Score-CAM: Score-Weighted Visual Explanations for Convolutional Neural Networks

Smooth Grad-CAM++: An Enhanced Inference Level Visualization Technique for Deep Convolutional Neural Network Models

Learning Visual Explanations for DCNN-Based Image Classifiers Using an Attention Mechanism


Distance-IoU Loss: Faster and Better Learning for Bounding Box Regression (AAAI 2020)

YOLOv3: An Incremental Improvement

Enhancing Geometric Factors in Model Learning and Inference for Object Detection and Instance Segmentation


MASS: Masked Sequence to Sequence Pre-training for Language Generation

Levenshtein Transformer

SEQ^3: Differentiable Sequence-to-Sequence-to-Sequence Autoencoder for Unsupervised Abstractive Sentence Compression

SemSUM: Semantic Dependency Guided Neural Abstractive Summarization

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

BiSET: Bi-directional Selective Encoding with Template for Abstractive Summarization

On Controllable Sparse Alternatives to Softmax

A Comprehensive Survey on Process-Oriented Automatic Text Summarization
  with Exploration of LLM-Based Methods

Fact-Enhanced Synthetic News Generation

Frustratingly Easy Model Ensemble for Abstractive Summarization

Empirical Methods in Natural Language Processing

VizSeq: A Visual Analysis Toolkit for Text Generation Tasks


This is our implementation of ENMF: Efficient Neural Matrix Factorization (TOIS. 38, 2020). This also provides a fair evaluation of existing state-of-the-art recommendation models.

Simplify and Robustify Negative Sampling for Implicit Collaborative Filtering

Graph Convolutional Network for Recommendation with Low-pass Collaborative Filters

Forgetting Fast in Recommender Systems

Density-Ratio Based Personalised Ranking from Implicit Feedback


PyTorch code for the CVPR'23 paper: "CODA-Prompt: COntinual Decomposed Attention-based Prompting for Rehearsal-Free Continual Learning"

OVOR: OnePrompt with Virtual Outlier Regularization for Rehearsal-Free
  Class-Incremental Learning


Generative model for code infilling and synthesis

InCoder: A Generative Model for Code Infilling and Synthesis

Natural Language Generation and Understanding of Big Code for AI-Assisted Programming: A Review

Natural Language to Code Generation in Interactive Data Science Notebooks

A Simple, Yet Effective Approach to Finding Biases in Code Generation


Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.

The Population Structure of Pseudomonas aeruginosa Is Characterized by Genetic Isolation of exoU+ and exoS+ Lineages

The global emergence of a novel Streptococcus suis clade associated with human infections

RibDif: can individual species be differentiated by 16S sequencing?

Characterization of Hemerocallis citrina Transcriptome and Development of EST-SSR Markers for Evaluation of Genetic Diversity and Population Structure of Hemerocallis Collection

Identification and Differentiation of Pseudomonas Species in Field Samples Using an rpoD Amplicon Sequencing Methodology

Genomic and phenotypic characterisation of invasive neonatal and colonising group B Streptococcus isolates from Slovenia, 2001–2018

The natural product biosynthesis potential of the microbiomes of Earth – Bioprospecting for novel anti-microbial agents in the meta-omics era

Computational and structural biotechnology journal

High Occurrence of Shiga Toxin-Producing Escherichia coli in Raw Meat-Based Diets for Companion Animals—A Public Health Issue

Molecular Typing of Ukrainian Bacillus anthracis Strains by Combining Whole-Genome Sequencing Techniques

Phylogenomic Analysis of Campylobacter fetus Reveals a Clonal Structure of Insertion Element ISCfe1 Positive Genomes


[ICML 2021] Break-It-Fix-It: Unsupervised Learning for Program Repair

A Survey of Learning-based Automated Program Repair

A Survey on Automated Program Repair Techniques

A Chain of AI-based Solutions for Resolving FQNs and Fixing Syntax Errors in Partial Code


This is the model in "A Graphical and Attentional Framework for Dual-Target Cross-Domain Recommendation" (IJCAI2020). GA-DTCDR is an optimized model for DTCDR ("DTCDR: A Framework for Dual-Target Cross-Domain Recommendation" in CIKM2019).

Cross-Domain Recommendation: Challenges, Progress, and Prospects

Multimodal Recommender Systems: A Survey

A Survey on Cross-Domain Sequential Recommendation


This is a repository with the data and code for the ACL 2019 paper "When a Good Translation is Wrong in Context: ..." and the EMNLP 2019 paper "Context-Aware Monolingual Repair for Neural Machine Translation"

When a Good Translation is Wrong in Context: Context-Aware Machine Translation Improves on Deixis, Ellipsis, and Lexical Cohesion

Capturing document context inside sentence-level neural machine translation models with self-training

A Comparison of Approaches to Document-level Machine Translation


inspired by 'Recurrent Neural Networks for Multivariate Time Series with Missing Values' pytorch ver

Regularizing and Optimizing LSTM Language Models

An Analysis of Neural Language Modeling at Multiple Scales

Feature Robustness in Non-stationary Health Records: Caveats to Deployable Model Performance in Common Clinical Machine Learning Tasks

Chasing Your Long Tails: Differentially Private Prediction in Health Care Settings

A Survey on Principles, Models and Methods for Learning from Irregularly Sampled Time Series: From Discretization to Attention and Invariance.


Implementation of the mixup training method

mixup: Beyond Empirical Risk Minimization

On Mixup Training: Improved Calibration and Predictive Uncertainty for Deep Neural Networks

DoubleMix: Simple Interpolation-Based Data Augmentation for Text Classification

Synthetic vs Real: Deep Learning on Controlled Noise


Train Llama 2 & 3 on the SQuAD v2 task as an example of how to specialize a generalized (foundation) model.

Prefix-Tuning: Optimizing Continuous Prompts for Generation

LIMA: Less Is More for Alignment

How is ChatGPT's behavior changing over time?

Think before you speak: Training Language Models With Pause Tokens


PyTorch Implementation of Meta-StyleSpeech : Multi-Speaker Adaptive Text-to-Speech Generation

FastSpeech 2: Fast and High-Quality End-to-End Text to Speech

FastSpeech: Fast, Robust and Controllable Text to Speech

StyleTTS: A Style-Based Generative Model for Natural and Diverse Text-to-Speech Synthesis

SNAC: Speaker-Normalized Affine Coupling Layer in Flow-Based Architecture for Zero-Shot Multi-Speaker Text-to-Speech


official implementation for our paper Cal-QL: Calibrated Offline RL Pre-Training for Efficient Online Fine-Tuning

CORL: Research-oriented Deep Offline Reinforcement Learning Library

Planning to Go Out-of-Distribution in Offline-to-Online Reinforcement Learning

Offline Retraining for Online RL: Decoupled Policy Learning to Mitigate Exploration Bias


Deep Image Compression using Decoder Side Information (ECCV 2020)

Neural Distributed Image Compression with Cross-Attention Feature Alignment

Neural Distributed Source Coding

Neural Distributed Image Compression Using Common Information


This is a torchvision style CNN models collection based on pytorch.

Squeeze-and-Excitation Networks

CBAM: Convolutional Block Attention Module

CSPNet: A New Backbone that can Enhance Learning Capability of CNN


Code of structural entropy minimisation for TAD identification of Hic matrix

Decoding topologically associating domains with ultra-low resolution Hi-C data by graph structural entropy

Identifying TAD-like domains on single-cell Hi-C data by graph embedding and changepoint detection


(ICLR 2022 Spotlight) Official PyTorch implementation of "How Do Vision Transformers Work?"

How Do Vision Transformers Work?

Blurs Behave Like Ensembles: Spatial Smoothings to Improve Accuracy, Uncertainty, and Robustness

Machine Learning State-of-the-Art with Uncertainties


Source code of PivotNet (ICCV2023, PivotNet: Vectorized Pivot Learning for End-to-end HD Map Construction)

MachMap: End-to-End Vectorized Solution for Compact HD-Map Construction

Is Your HD Map Constructor Reliable under Sensor Corruptions?


Continuous Degradation Detection on the Google Earth Engine

Ongoing forest disturbance in Guatemala's protected areas

Remote sensing in ecology and conservation

Lessons Learned While Implementing a Time-Series Approach to Forest Canopy Disturbance Detection in Nepal

Project impact assessment on deforestation and forest degradation: Forest Disturbance Dataset


Identify genes with spatial expression trends in single-cell gene expression data

Identification of spatial expression trends in single-cell gene expression data

Clinical and translational values of spatial transcriptomics

Signal transduction and targeted therapy

Spatial omics: Navigating to the golden era of cancer research

Analysis and Visualization of Spatial Transcriptomic Data

Schema: metric learning enables interpretable synthesis of heterogeneous single-cell modalities

Computational elucidation of spatial gene expression variation from spatially resolved transcriptomics data

A selective review of recent developments in spatially variable gene detection for spatial transcriptomics


On-the-fly Structured Pruning for PyTorch models. This library implements several attributions metrics and structured pruning utils for neural networks in PyTorch.

Pruning Filters for Efficient ConvNets

Network Trimming: A Data-Driven Neuron Pruning Approach towards Efficient Deep Architectures

Studying the Plasticity in Deep Convolutional Neural Networks using Random Pruning

Shapley Value as Principled Metric for Structured Network Pruning


Code for training PhysNet models

SpookyNet: Learning force fields with electronic degrees of freedom and nonlocal effects

Choosing the right molecular machine learning potential

MLatom 2: An Integrative Platform for Atomistic Machine Learning

Machine Learning Models of Vibrating H2CO: Comparing Reproducing Kernels, FCHL, and PhysNet

Thermal Half-Lives of Azobenzene Derivatives: Virtual Screening Based on Intersystem Crossing Using a Machine Learning Potential

Impact of the characteristics of quantum chemical databases on machine learning predictions of tautomerization energies

Thermal and Vibrationally Activated Decomposition of the syn-CH_3CHOO Criegee Intermediate

Transfer-learned potential energy surfaces: Toward microsecond-scale molecular dynamics simulations in the gas phase at CCSD(T) quality.

MP2 Is Not Good Enough: Transfer Learning ML Models for Accurate VPT2 Frequencies

Numerical Accuracy Matters: Applications of Machine Learned Potential Energy Surfaces


Bidirectional Attention Flow for Machine Comprehension

Latent Predictor Networks for Code Generation

Adversarial Domain Adaptation for Machine Reading Comprehension

Two-Stage Synthesis Networks for Transfer Learning in Machine Comprehension

Neural Question Generation with Answer Pivot


The Attract-Repel algorithm presented in (Mrkšić et al., TACL 2017), with accompanying resources.

Semantic Specialisation of Distributional Word Vector Spaces using Monolingual and Cross-Lingual Constraints

Specialising Word Vectors for Lexical Entailment

Encoding Sentiment Information into Word Vectors for Sentiment Analysis

International Conference on Computational Linguistics

Cross-Lingual Induction and Transfer of Verb Classes Based on Word Vector Space Specialisation

Injecting Lexical Contrast into Word Vectors by Guiding Vector Space Specialisation

Reproducibility dataset for a large experimental survey on word embeddings and ontology-based methods for word similarity

Lexicon-Enhancement of Embedding-based Approaches Towards the Detection of Abusive Language

Workshop on Trolling, Aggression and Cyberbullying

Using pseudo-senses for improving the extraction of synonyms from word embeddings

PROCEEDINGS OF THE 56TH ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS, VOL 2

RetroGAN: A Cyclic Post-Specialization System for Improving Out-of-Knowledge and Rare Word Representations

Meeting of the Association for Computational Linguistics

SenseFitting: Sense Level Semantic Specialization of Word Embeddings for Word Sense Disambiguation


[ICLR 2024] Official implementation of "TimeMixer: Decomposable Multiscale Mixing for Time Series Forecasting"

iTransformer: Inverted Transformers Are Effective for Time Series Forecasting

Time-LLM: Time Series Forecasting by Reprogramming Large Language Models

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


MVMR R Package

Testing and correcting for weak and pleiotropic instruments in two‐sample multivariable Mendelian randomization

Proteome-wide Mendelian randomization implicates nephronectin as an actionable mediator of the effect of obesity on COVID-19 severity

Is genetic liability to ADHD and ASD causally linked to educational attainment?

Investigating Casual Associations among Gut Microbiota, Metabolites and Neurodegenerative Diseases: A Mendelian Randomization Study

Socioeconomic status and severe mental disorders: a bidirectional multivariable Mendelian randomisation study

The relationship between BMI and COVID-19: exploring misclassification and selection bias in a two-sample Mendelian randomisation study

Prioritizing Causal Risk Factors for Severe COVID-19: An Exhaustive Mendelian Randomization Study

BMI and Cardiometabolic Traits in Japanese: A Mendelian Randomization Study

No Relationship between Male Pubertal Timing and Depression – New Insights from Epidemiology and Mendelian Randomization


Build Text Rerankers with Deep Language Models

Rethink Training of BERT Rerankers in Multi-Stage Retrieval Pipeline

Scaling Deep Contrastive Learning Batch Size under Memory Limited Setup

Naver Labs Europe (SPLADE) @ TREC Deep Learning 2022

Naver Labs Europe (SPLADE) @ TREC NeuCLIR 2022

Post Turing: Mapping the landscape of LLM Evaluation


Hyperbolic Knowledge Graph embeddings.

Low-Dimensional Hyperbolic Knowledge Graph Embeddings

Self-Supervised Learning of Contextual Embeddings for Link Prediction in Heterogeneous Networks

Hyperbolic Temporal Knowledge Graph Embeddings with Relational and Time Curvatures

Hyperbolic Geometry is Not Necessary: Lightweight Euclidean-Based Models for Low-Dimensional Knowledge Graph Embeddings

SMiLE: Schema-augmented Multi-level Contrastive Learning for Knowledge Graph Link Prediction

Complex Hyperbolic Knowledge Graph Embeddings with Fast Fourier Transform

KACC: A Multi-task Benchmark for Knowledge Abstraction, Concretization and Completion

Unit Ball Model for Embedding Hierarchical Structures in the Complex Hyperbolic Space


AlBERTo the first italian BERT model for Twitter languange understanding

KR-BERT: A Small-Scale Korean-Specific Language Model

CLiC-it - How “BERTology" Changed the State-of-the-Art also for Italian NLP

Proceedings of the Seventh Italian Conference on Computational Linguistics CLiC-it 2020

Killing me softly: Creative and cognitive aspects of implicitness in abusive language online

Cross-lingual hate speech detection based on multilingual domain-specific word embeddings

A Machine Learning approach for Sentiment Analysis for Italian Reviews in Healthcare


FRANK: Factuality Evaluation Benchmark

Understanding Factuality in Abstractive Summarization with FRANK: A Benchmark for Factuality Metrics

FactGraph: Evaluating Factuality in Summarization with Semantic Graph Representations

FactKB: Generalizable Factuality Evaluation using Language Models Enhanced with Factual Knowledge

Evaluating and Improving Factuality in Multimodal Abstractive Summarization

HaRiM^+: Evaluating Summary Quality with Hallucination Risk


Official PyTorch implementation of the TIP paper "Generating Visually Aligned Sound from Videos" and the corresponding Visually Aligned Sound (VAS) dataset.

WaveNet: A Generative Model for Raw Audio

Visual to Sound: Generating Natural Sound for Videos in the Wild

VarietySound: Timbre-Controllable Video to Sound Generation via Unsupervised Information Disentanglement


Benchmarking Neural Network Robustness to Common Corruptions and Perturbations

Deep Hashing Network for Unsupervised Domain Adaptation

Deeper, Broader and Artier Domain Generalization

Recognition in Terra Incognita

HYPO: Hyperspherical Out-of-Distribution Generalization


Model Fusion via Optimal Transport, NeurIPS 2020

Model Fusion via Optimal Transport

On Cross-Layer Alignment for Model Fusion of Heterogeneous Neural Networks

FedFisher: Leveraging Fisher Information for One-Shot Federated Learning


Official BraTS 2023 Segmentation Performance Metrics

The Brain Tumor Segmentation (BraTS-METS) Challenge 2023: Brain Metastasis Segmentation on Pre-treatment MRI

The 2024 Brain Tumor Segmentation (BraTS) Challenge: Glioma Segmentation on Post-treatment MRI

All Sizes Matter: Improving Volumetric Brain Segmentation on Small Lesions

BraTS-PEDs: Results of the Multi-Consortium International Pediatric Brain Tumor Segmentation Challenge 2023

LNQ Challenge 2023: Learning Mediastinal Lymph Node Segmentation with a Probabilistic Lymph Node Atlas


SK-Tree: a systematic malware detection algorithm on streaming trees via the signature kernel

DeepTaskAPT: Insider APT detection using Task-tree based Deep Learning

Kairos: Practical Intrusion Detection and Investigation using Whole-system Provenance

LogShield: A Transformer-based APT Detection System Leveraging Self-Attention

Ostinato: Cross-host Attack Correlation Through Attack Activity Similarity Detection

Malicious Cyber Activity Detection Using Zigzag Persistence

Local2Global: a distributed approach for scaling representation learning on graphs


Correlation coefficients with uncertainties

The Physical Properties of Low-redshift FeLoBAL Quasars. I. Spectral-synthesis Analysis of the Broad Absorption-line (BAL) Outflows Using SimBAL

Multi-phase outflows in post starburst E+A galaxies -- I. General sample properties and the prevalence of obscured starbursts

The Bimodal Absorption System Imaging Campaign (BASIC) I. A Dual Population of Low-metallicity Absorbers at z lt;1

Large Myr-old Disks Are Not Severely Depleted of Gas-phase CO or Carbon

12CO (3–2) High-Resolution Survey (COHRS) of the Galactic Plane: Complete Data Release

Quantifying the Escape of Lyα at z ≈ 5–6: A Census of Lyα Escape Fraction with Hα-emitting Galaxies Spectroscopically Confirmed by JWST and VLT/MUSE

The Astrophysical Journal Supplement Series

Radio continuum properties of OH megamaser galaxies

Monthly Notices of the Royal Astronomical Society

Quantifying the escape of Lyα at z≈ 5-6: a census of Lyα escape fraction with Hα emitting galaxies spectroscopically confirmed by JWST and VLT/MUSE

CON-quest. II. Spatially and spectrally resolved HCN/HCO+ line ratios in local luminous and ultraluminous infrared galaxies


Code and dataset for Single Underwater Image Restoration by Contrastive Learning, IGARSS 2021, oral.

Contrastive Learning for Unpaired Image-to-Image Translation

Underwater Image Restoration via Contrastive Learning and a Real-world Dataset


multi-agent deep reinforcement learning for networked system control.

Neural Message Passing for Quantum Chemistry

Learning Multiagent Communication with Backpropagation

Stabilising Experience Replay for Deep Multi-Agent Reinforcement Learning

Fully Decentralized Multi-Agent Reinforcement Learning with Networked Agents

Modeling Others using Oneself in Multi-Agent Reinforcement Learning

Multi-agent Reinforcement Learning for Networked System Control

An Introduction to Multi-Agent Reinforcement Learning and Review of its Application to Autonomous Mobility


MiniSeg: An Extremely Minimum Network for Efficient COVID-19 Segmentation

MiniSeg: An Extremely Minimum Network Based on Lightweight Multiscale Learning for Efficient COVID-19 Segmentation

IEEE transactions on neural networks and learning systems

A convolutional neural network with pixel-wise sparse graph reasoning for COVID-19 lesion segmentation in CT images

CoRSAI: A System for Robust Interpretation of CT Scans of COVID-19 Patients Using Deep Learning

PSGR: Pixel-wise Sparse Graph Reasoning for COVID-19 Pneumonia Segmentation in CT Images


Implementations of the robust point set registration algorithm described in "Robust Point Set Registration Using Gaussian Mixture Models", Bing Jian and Baba C. Vemuri, IEEE Transactions on Pattern Analysis and Machine Intelligence, 2011, 33(8), pp. 1633-1645.   For a Python implementation, please refer to http://github.com/bing-jian/gmmreg-python.

IEEE transactions on pattern analysis and machine intelligence

Fast and Robust Iterative Closest Point

Fast and Accurate Point Cloud Registration using Trees of Gaussian Mixtures

Shape Registration with Directional Data

Comparison of 3D scan matching techniques for autonomous robot navigation in urban and agricultural environments

From 2D to 3D Geodesic-based Garment Matching


Model Zoo of BDD100K Dataset

BDD100K: A Diverse Driving Dataset for Heterogeneous Multitask Learning

DreamTeacher: Pretraining Image Backbones with Deep Generative Models

Video Task Decathlon: Unifying Image and Video Tasks in Autonomous Driving


Scripts required to calculate tetramer frequencies and create input files for ESOM. See: Dick, G.J., A. Andersson, B.J. Baker, S.S. Simmons, B.C. Thomas, A.P. Yelton, and J.F. Banfield (2009).  Community-wide analysis of microbial genome sequence signatures. Genome Biology, 10: R85

Bioinformatics strategies for taxonomy independent binning and visualization of sequences in shotgun metagenomics

Inference and reconstruction of the heimdallarchaeial ancestry of eukaryotes

The genome of an intranuclear parasite, Paramicrosporidium saccamoebae, reveals alternative adaptations to obligate intracellular parasitism

Metagenomic evidence for metabolism of trace atmospheric gases by high-elevation desert Actinobacteria

Complex subsurface hydrothermal fluid mixing at a submarine arc volcano supports distinct and highly diverse microbial communities

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


The implementation of the paper "Augmenting Neural Response Generation with Context-Aware Topical Attention"

Sequence to Sequence Learning with Neural Networks

Topic Aware Neural Response Generation

A Hierarchical Latent Variable Encoder-Decoder Model for Generating Dialogues

Low-Resource Knowledge-Grounded Dialogue Generation

Towards Best Experiment Design for Evaluating Dialogue System Output

Low-Resource Dialogue Summarization with Domain-Agnostic Multi-Source Pretraining

Studying the Effects of Cognitive Biases in Evaluation of Conversational Agents

Open Domain Dialogue Generation with Latent Images

A Simple and Efficient Multi-Task Learning Approach for Conditioned Dialogue Generation