Pytorch implementation of "Large-Scale Representation Learning on Graphs via Bootstrapping"

Bootstrap your own latent: A new approach to self-supervised Learning

GraphMAE2: A Decoding-Enhanced Masked Self-Supervised Graph Learner

Self-supervised Graph Neural Networks without explicit negative sampling

UniGraph: Learning a Cross-Domain Graph Foundation Model From Natural
  Language


Scripts to help transposable elements consensus sequences curation

Structure of the germline genome of Tetrahymena thermophila and relationship to the massively rearranged somatic genome

Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia)

Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise

The First Genome of the Balearic Shearwater (Puffinus mauretanicus) Provides a Valuable Resource for Conservation Genomics and Sheds Light on Adaptation to a Pelagic lifestyle


Deep Neural Network Optimization Platform with Gradient-based, Gradient-Free Algorithms

Derivative-Free Optimization of Neural Networks using Local Search

Ubiquitous Computing, Electronics & Mobile Communication Conference

Optimizing Deep Neural Networks with Multiple Search Neuroevolution

Experiential Robot Learning with Accelerated Neuroevolution

Examining Hyperparameters of Neural Networks Trained Using Local Search

International Conference on the Internet, Cyber Security and Information Systems


[RSS 2023] Official code for "Goal Conditioned Imitation Learning using Score-based Diffusion Policies"

Score-Based Generative Modeling through Stochastic Differential Equations

Improved Denoising Diffusion Probabilistic Models

Elucidating the Design Space of Diffusion-Based Generative Models

Goal-Conditioned Imitation Learning using Score-based Diffusion Policies

Learning to Reach Goals via Diffusion


A team of researchers from Qatar University, Doha, Qatar and the University of Dhaka, Bangladesh along with their collaborators from Pakistan and Malaysia in collaboration with medical doctors have managed to classify COVID-19, Viral pneumonia and Normal Chest X-ray images with an accuracy of 98.3%. This scholarly work is submitted to Scientific Reports (Nature) and the manuscript is uploaded to the arvix server(https://arxiv.org/abs/2003.13145). Please make sure you give credit to us while using this repository(https://github.com/tawsifur/COVID-19-Chest-X-ray-Detection) and this database( https://www.kaggle.com/tawsifurrahman/covid19-radiography-database)

Real-time COVID-19 diagnosis from X-Ray images using deep CNN and extreme learning machines stabilized by chimp optimization algorithm

Biomedical signal processing and control

Computer Vision For COVID-19 Control: A Survey

Improved deep convolutional neural networks using chimp optimization algorithm for Covid19 diagnosis from the X-ray images

Hybrid ensemble model for differential diagnosis between COVID-19 and common viral pneumonia by chest X-ray radiograph

Novel coronavirus (COVID-19) diagnosis using computer vision and artificial intelligence techniques: a review

Superpixel-based Domain-Knowledge Infusion in Computer Vision.


Multi-Channel Deep Chemogenomic Modeling of Receptor-Ligand Binding Affinity Prediction for Drug Discovery

MDeePred: novel multi-channel protein featurization for deep learning-based binding affinity prediction in drug discovery

CROssBAR: comprehensive resource of biomedical relations with knowledge graph representations

A deep learning method for drug-target affinity prediction based on sequence interaction information mining


Nextflow bioinformatics pipeline for large-scale analysis of Multiple Myeloma genomes

Whole-Genome Sequencing Identifies Structural Variation As a Key Driver of Disease Relapse and Aggressive Clinical Behavior in Multiple Myeloma


R package

pRRophetic: An R Package for Prediction of Clinical Chemotherapeutic Response from Tumor Gene Expression Levels

M2-like tumor-associated macrophage-related biomarkers to construct a novel prognostic signature, reveal the immune landscape, and screen drugs in hepatocellular carcinoma

Identification and validation of a prognostic model of necroptosis-related lncRNAs in hepatocellular carcinoma

Identification and Validation of a Prognostic Prediction Model of m6A Regulator-Related LncRNAs in Hepatocellular Carcinoma

Establishment of an endoplasmic reticulum stress-associated lncRNAs model to predict prognosis and immunological characteristics in hepatocellular carcinoma

A novel recurrence-associated metabolic prognostic model for risk stratification and therapeutic response prediction in patients with stage I lung adenocarcinoma

A Prognostic Autophagy-Related Gene Pair Signature and Small-Molecule Drugs for Hepatocellular Carcinoma

Construction and Validation of a Novel Prognosis Model in Colon Cancer Based on Cuproptosis-Related Long Non-Coding RNAs

Identification of a Novel Gene Signature with DDR and EMT Difunctionalities for Predicting Prognosis, Immune Activity, and Drug Response in Breast Cancer

A prognostic and immune related risk model based on zinc homeostasis in hepatocellular carcinoma


Log-Can: Local-Global Class-Aware Network For Semantic Segmentation of Remote Sensing Images

SACANet: scene-aware class attention network for semantic segmentation of remote sensing images

DOCNet: Dual-Domain Optimized Class-Aware Network for Remote Sensing Image Segmentation

IEEE Geoscience and Remote Sensing Letters


A simple implementation of our paper

Ensemble Learning for Spectral Clustering

Divide-and-conquer based large-scale spectral clustering

LSEC: Large-scale spectral ensemble clustering


Official repository of the paper "Efficient Neural Causal Discovery without Acyclicity Constraints"

A Survey on Causal Discovery Methods for I.I.D. and Time Series Data

On the Generalization and Adaption Performance of Causal Models


Reimplementing SOTA convolution variants with Tensorflow 2.0.

CBAM: Convolutional Block Attention Module

ECA-Net: Efficient Channel Attention for Deep Convolutional Neural Networks

Attention Augmented Convolutional Networks

MixConv: Mixed Depthwise Convolutional Kernels


Reproducing CheXpert paper using the PyTorch library.

Densely Connected Convolutional Networks

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

International Journal of Computer Vision

CheXpert: A Large Chest Radiograph Dataset with Uncertainty Labels and Expert Comparison


ZGA prokaryotic genome assembly and annotation pipeline

fastp: an ultra-fast all-in-one FASTQ preprocessor

Minimap2: pairwise alignment for nucleotide sequences

Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads

Assembly of long, error-prone reads using repeat graphs

Mash: fast genome and metagenome distance estimation using MinHash

BBMerge – Accurate paired shotgun read merging via overlap

NxTrim: optimized trimming of Illumina mate pair reads

A dataset of four probiotic Bifidobacterium strains genome assemblies

ZGA: a flexible pipeline for read processing, de novo assembly and annotation of prokaryotic genomes


Outlier detection related books and papers.

Isolation-Based Anomaly Detection

ACM Transactions on Knowledge Discovery from Data

Graph-based Anomaly Detection and Description: A Survey

A survey on unsupervised outlier detection in high‐dimensional numerical data

Hierarchical Density Estimates for Data Clustering, Visualization, and Outlier Detection

HiCS: High Contrast Subspaces for Density-Based Outlier Ranking

International Conference on Data Engineering

Local outlier detection reconsidered: a generalized view on locality with applications to spatial, video, and network outlier detection

Isolation‐based anomaly detection using nearest‐neighbor ensembles

International Conference on Climate Informatics

Efficient Anomaly Detection by Isolation Using Nearest Neighbour Ensemble

Mining outlying aspects on numeric data

Improving iForest with Relative Mass

Pacific-Asia Conference on Knowledge Discovery and Data Mining


Creative Commons Attribution Share Alike 4.0 International

KwaiRec: A Fully-observed Dataset for Recommender Systems.

KuaiRec: A Fully-observed Dataset and Insights for Evaluating Recommender Systems

Proceedings of the 31st ACM International Conference on Information & Knowledge Management

AutoDenoise: Automatic Data Instance Denoising for Recommendations

Causal Inference in Recommender Systems: A Survey of Strategies for Bias Mitigation, Explanation, and Generalization

HyperBandit: Contextual Bandit with Hypernewtork for Time-Varying User Preferences in Streaming Recommendation

Be Aware of the Neighborhood Effect: Modeling Selection Bias under
  Interference


A Broader Study of Cross-Domain Few-Shot Learning

Pushing the Limits of Simple Pipelines for Few-Shot Learning: External Data and Fine-Tuning Make a Difference


Official implementation of Learning The Pareto Front With HyperNetworks [ICLR 2021]

Learning the Pareto Front with Hypernetworks

Controllable Pareto Multi-Task Learning

Scalable Uni-directional Pareto Optimality for Multi-Task Learning with Constraints

Multi-Task Learning with Multi-Task Optimization


The CODWOE shared task invites you to compare two types of semantic descriptions: dictionary glosses and word embedding representations. Are these two types of representation equivalent? Can we generate one from the other?

Semeval-2022 Task 1: CODWOE – Comparing Dictionaries and Word Embeddings

LingJing at SemEval-2022 Task 1: Multi-task Self-supervised Pre-training for Multilingual Reverse Dictionary

Proceedings of the 16th International Workshop on Semantic Evaluation (SemEval-2022)

IRB-NLP at SemEval-2022 Task 1: Exploring the Relationship Between Words and Their Semantic Representations


BioMetAll is a command line application to allow the identification of metal-binding sites in proteins from backbone preorganization.

BioMetAll: Identifying Metal-Binding Sites in Proteins from Backbone Preorganization

Journal of chemical information and modeling

Structural Bioinformatics and Deep Learning of Metalloproteins: Recent Advances and Applications

International journal of molecular sciences

A Comprehensive Review of Computation-Based Metal-Binding Prediction Approaches at the Residue Level


[ECCV 2020] Attract, Perturb, and Explore: Learning a Feature Alignment Network for Semi-supervised Domain Adaptation

Semi-supervised Domain Adaptation via Sample-to-Sample Self-Distillation

Semi-Supervised Domain Adaptation Using Explicit Class-Wise Matching for Domain-Invariant and Class-Discriminative Feature Learning

Investigating Generalizability of Speech-based Suicidal Ideation Detection Using Mobile Phones

Proceedings of the ACM on Interactive, Mobile, Wearable and Ubiquitous Technologies


[ISPRS Congress 2020] Lake Ice Detection from Sentinel-1 SAR with Deep Learning (Deeplabv3+, Tensorflow). The data was collected from Google Earth Engine platform.

Encoder-Decoder with Atrous Separable Convolution for Semantic Image Segmentation

Rethinking Atrous Convolution for Semantic Image Segmentation

Integrated monitoring of ice in selected Swiss lakes. Final project report

Recent Ice Trends in Swiss Mountain Lakes: 20-year Analysis of MODIS Imagery

Learning a Joint Embedding of Multiple Satellite Sensors: A Case Study for Lake Ice Monitoring

IEEE Transactions on Geoscience and Remote Sensing


An open-source framework to benchmark and assess safety specifications of Reinforcement Learning problems.

Safe Deep Reinforcement Learning by Verifying Task-Level Properties

SafeRL-Kit: Evaluating Efficient Reinforcement Learning Methods for Safe Autonomous Driving


Official Pytorch implementation of "Learning Debiased Representation via Disentangled Feature Augmentation (Neurips 2021, Oral)"

RobustNet: Improving Domain Generalization in Urban-Scene Segmentation via Instance Selective Whitening

Debiasing Graph Neural Networks via Learning Disentangled Causal Substructure

Mitigating Dataset Bias by Using Per-sample Gradient

Learning Debiased Models with Dynamic Gradient Alignment and Bias-conflicting Sample Mining

Fighting Fire with Fire: Contrastive Debiasing without Bias-free Data via Generative Bias-transformation

Denoising after Entropy-based Debiasing A Robust Training Method for Dataset Bias with Noisy Labels


Segmentation and Classification models for COVID CT scans (COVID, pneumonia, normal) based on Mask R-CNN.

COVID-CT-Mask-Net: Prediction of COVID-19 from CT Scans Using Regional Features

Detection and Segmentation of Lesion Areas in Chest CT Scans For The Prediction of COVID-19

Lightweight Model For The Prediction of COVID-19 Through The Detection And Segmentation of Lesions in Chest CT Scans


Sync paired-end FASTA/Q files and keep singleton reads

A target enrichment method for gathering phylogenetic information from hundreds of loci: An example from the Compositae

ACME dissociation: a versatile cell fixation-dissociation method for single-cell transcriptomics

Systems analysis of subjects acutely infected with the Chikungunya virus

Landscape of Transposable Elements Focusing on the B Chromosome of the Cichlid Fish Astatotilapia latifasciata

Comparative phylogenetics of repetitive elements in a diverse order of flowering plants (Brassicales)

RNA-seq-based genome annotation and identification of long-noncoding RNAs in the grapevine cultivar ‘Riesling’

A de novo transcriptome assembly of the zebra bullhead shark, Heterodontus zebra

Annelid adult cell type diversity and their pluripotent cellular origins

bioRxiv : the preprint server for biology

Transcriptome Analysis Uncovers the Gene Expression Profile of Hemileia vastatrix (Race XXXIII) during the Interactions with Resistant and Susceptible Coffee

Transcriptomic Profiling Revealed Signaling Pathways Associated with the Spawning of Female Zebrafish under Cold Stress


pDeep: Predicting MS/MS Spectra of Peptides with Deep Learning

In silico spectral libraries by deep learning facilitate data-independent acquisition proteomics

MS/MS Spectrum Prediction for Modified Peptides Using pDeep2 Trained by Transfer Learning.

Hybrid Spectral Library Combining DIA-MS Data and a Targeted Virtual Library Substantially Deepens the Proteome Coverage

DeepPhospho: Accelerate DIA phosphoproteome profiling by Deep Learning


Source code for "A Lightweight Recurrent Network for Sequence Modeling"

Quasi-Recurrent Neural Networks

Simple Recurrent Units for Highly Parallelizable Recurrence

Recurrent Additive Networks

Simplifying Neural Machine Translation with Addition-Subtraction Twin-Gated Recurrent Networks


HDGI code

Graph Self-Supervised Learning: A Survey

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

Heterogeneous Deep Graph Infomax

HeMI: Multi-view Embedding in Heterogeneous Graphs


Compositional Obverter Communication Learning From Raw Visual Input - Pytorch Implementation

Developmentally motivated emergence of compositional communication via template transfer

Catalytic Role Of Noise And Necessity Of Inductive Biases In The Emergence Of Compositional Communication


A collection of R code for dealing with SNP data and analyses

Using high-throughput sequencing to investigate the factors structuring genomic variation of a Mediterranean grasshopper of great conservation concern

Evidence for Glacial Refugia of the Forest Understorey Species Helleborus niger (Ranunculaceae) in the Southern as Well as in the Northern Limestone Alps

Genomic evidence of speciation by fusion in a recent radiation of grasshoppers

Evolution; international journal of organic evolution


Reinforcement learning - Batched Impala - PyTorch - Mario Kart

Playing Atari with Deep Reinforcement Learning

Asynchronous Methods for Deep Reinforcement Learning

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

Reinforcement Learning through Asynchronous Advantage Actor-Critic on a GPU


Train Dense Passage Retriever (DPR) with a single GPU

Dense Passage Retrieval for Open-Domain Question Answering

Unsupervised Corpus Aware Language Model Pre-training for Dense Passage Retrieval

Condenser: a Pre-training Architecture for Dense Retrieval

Scaling Deep Contrastive Learning Batch Size under Memory Limited Setup


Measuring COVID-19's gendered impact on academic productivity using submission data from preprint servers

Gender Equity Considerations for Tenure and Promotion during COVID‐19

Canadian review of sociology = Revue canadienne de sociologie

Researchers working from home: Benefits and challenges

Impact of Covid-19 on research output by gender across countries

Lived experiences of women academics during the COVID-19 pandemic in Pakistan

Dimensões de sexo, gênero e raça na pesquisa sobre COVID-19

Epidemiologia e servicos de saude : revista do Sistema Unico de Saude do Brasil

Amplification of Structural Inequalities: Research Sabbaticals During COVID-19

Academic Productivity of Equity-Deserving Physician Scholars During COVID-19: A Scoping Review

Academic medicine : journal of the Association of American Medical Colleges


Publicly available code from my publications

Machine Learning for Causal Inference: On the Use of Cross-fit Estimators

Transportability Without Positivity: A Synthesis of Statistical and Simulation Modeling

Synthesis estimators for positivity violations with a continuous covariate

Bridged treatment comparisons: an illustrative application in HIV treatment

Empirical sandwich variance estimator for iterated conditional expectation g-computation


R package for the analysis of OK-Seq data to study DNA replication fork directionality: from count matrices, RFD calculation to inititation/termination zone calling.

Prospectively defined patterns of APOBEC3A mutagenesis are prevalent in human cancers

Determination of human DNA replication origin position and efficiency reveals principles of initiation zone organisation

OKseqHMM: a genome-wide replication fork directionality analysis toolkit

Integrative analysis of DNA replication origins and ORC-/MCM-binding sites in human cells reveals a lack of overlap


Tools for power sector emissions tracking

Tracking emissions in the US electricity system

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

A physics-informed data reconciliation framework for real-time electricity and emissions tracking


Code to compute the XP-CLR statistic to infer natural selection

Large-scale whole-genome resequencing unravels the domestication history of Cannabis sativa

Improved pea reference genome and pan-genome highlight genomic features and evolutionary characteristics

Improved genome assembly and pan‐genome provide key insights into eggplant domestication and breeding

The Plant journal : for cell and molecular biology

Genome-Wide Association Study Reveals Complex Genetic Architecture of Cadmium and Mercury Accumulation and Tolerance Traits in Medicago truncatula

Whole Genome Sequencing Reveals Signatures for Artificial Selection for Different Sizes in Japanese Primitive Dog Breeds

Genetic Diversity, Structure, and Selective Sweeps in Spinacia turkestanica Associated With the Domestication of Cultivated Spinach

Genomic Analysis Reveals Human-Mediated Introgression From European Commercial Pigs to Henan Indigenous Pigs

Metabolite-based genome-wide association studies enable the dissection of the genetic bases of flavonoids, betaine and spermidine in wolfberry (Lycium)

Genome resequencing reveals independent domestication and breeding improvement of naked oat

The genomic history and global migration of a windborne pest


Generates initial conditions for a spiral galaxy simulation in a format that can be read in GADGET2 or RAMSES, or alternatively in the HDF5 format.

The fate of the gaseous discs of galaxies that fall into clusters

Monthly Notices of the Royal Astronomical Society

Dynamic localized turbulent diffusion and its impact on the galactic ecosystem

Monthly notices of the Royal Astronomical Society

Galaxy Evolution in Clusters


A Python Package for the calculation of inflationary correlation functions.

Attractor behaviour in multifield inflation

Journal of Cosmology and Astroparticle Physics

Numerically evaluating the bispectrum in curved field-space - with PyTransport 2.0

Multi-field inflation with large scalar fluctuations: non-Gaussianity and perturbativity

Non-linear effects in early Universe cosmology


Input-aware Dynamic Backdoor Attack (NeurIPS 2020)

Input-Aware Dynamic Backdoor Attack

Adversarial Neuron Pruning Purifies Backdoored Deep Models

Adversarial Unlearning of Backdoors via Implicit Hypergradient

Few-Shot Backdoor Attacks on Visual Object Tracking

Reconstructive Neuron Pruning for Backdoor Defense

Turning a Curse into a Blessing: Enabling In-Distribution-Data-Free Backdoor Removal via Stabilized Model Inversion


Educational tools for AI Ethics and Safety research

Mastering Chess and Shogi by Self-Play with a General Reinforcement Learning Algorithm

Agent57: Outperforming the Atari Human Benchmark


Mathematica package for Clifford (geometric) algebra calculations

On computing the determinant, other characteristic polynomial coefficients, and inverse in Clifford algebras of arbitrary dimension

Exponentials of general multivector in 3D Clifford algebras

The characteristic polynomial in calculation of exponential and elementary functions in Clifford algebras

Inverse of multivector: Beyond p+q=5 threshold

Basis-Free Formulas for Characteristic Polynomial Coefficients in Geometric Algebras

Square root of a multivector of Clifford algebras in 3D: A game with signs

Logarithm of multivector in real 3D Clifford algebras


Official implementation of our FLAG paper (CVPR2022)

Robust Optimization as Data Augmentation for Large-scale Graphs

Graph Augmentation Learning

Data Augmentation for Graph Data: Recent Advancements


An ongoing & curated collection of awesome software best practices and techniques, libraries and frameworks, E-books and videos, websites, blog posts, links to github Repositories, technical guidelines and important resources about Searchable Symmetric Encryption.

HardIDX: Practical and Secure Index with SGX

Fast Searchable Encryption With Tunable Locality

SIGMOD'17: PROCEEDINGS OF THE 2017 ACM INTERNATIONAL CONFERENCE ON MANAGEMENT OF DATA

DataBlinder: A distributed data protection middleware supporting search and computation on encrypted data

PROCEEDINGS OF THE 2019 20TH INTERNATIONAL MIDDLEWARE CONFERENCE INDUSTRIAL TRACK (MIDDLEWARE INDUSTRY '19)


Lightweight pipeline for processing droplet-based single-cell RNA-seq data

Systematic Comparison of High-throughput Single-Cell and Single-Nucleus Transcriptomes during Cardiomyocyte Differentiation

Single-cell sequencing reveals lineage-specific dynamic genetic regulation of gene expression during human cardiomyocyte differentiation

Ribonucleotide reductase regulatory subunit M2 drives glioblastoma TMZ resistance through modulation of dNTP production


Fast and flexible code for solving the inverse Ising/Potts inference problem

Adaptive Cluster Expansion for Inferring Boltzmann Machines with Noisy Data

ACE: adaptive cluster expansion for maximum entropy graphical model inference

Adaptive Cluster Expansion for the Inverse Ising Problem: Convergence, Algorithm and Tests

Ising models for neural activity inferred via selective cluster expansion: structural and coding properties

Journal of Statistical Mechanics: Theory and Experiment

Deconvolving mutational patterns of poliovirus outbreaks reveals its intrinsic fitness landscape

Functional coupling networks inferred from prefrontal cortex activity show experience-related effective plasticity

Inference of compressed Potts graphical models

Direct Coupling Analysis of Epistasis in Allosteric Materials

Prediction of Structures and Interactions from Genome Information

INTEGRATIVE STRUCTURAL BIOLOGY WITH HYBRID METHODS

Emergence of time persistence in a data-driven neural network model


(CVPR 2022) Energy-based Latent Aligner for Incremental Learning

Towards Open World Object Detection

OW-DETR: Open-world Detection Transformer

Incremental Object Detection via Meta-Learning

On the Stability-Plasticity Dilemma of Class-Incremental Learning


Structural variant pipeline

From cytogenetics to cytogenomics: whole-genome sequencing as a first-line test comprehensively captures the diverse spectrum of disease-causing genetic variation underlying intellectual disability

Comprehensive structural variation genome map of individuals carrying complex chromosomal rearrangements

Replicative and non-replicative mechanisms in the formation of clustered CNVs are indicated by whole genome characterization

Mutations in COL1A1/A2 and CREB3L1 are associated with oligodontia in osteogenesis imperfecta

Predisposition to childhood acute lymphoblastic leukemia caused by a constitutional translocation disrupting ETV6

Whole genome sequencing unveils genetic heterogeneity in optic nerve hypoplasia

Chromoanagenesis Event Underlies a de novo Pericentric and Multiple Paracentric Inversions in a Single Chromosome Causing Coffin–Siris Syndrome

pyCancerSig: subclassifying human cancer with comprehensive single nucleotide, structural and microsatellite mutational signature deconstruction from whole genome sequencing

Loqusdb: added value of an observations database of local genomic variation

A somatic UBA2 variant preceded ETV6-RUNX1 in the concordant BCP-ALL of monozygotic twins


Neural network class for molecular dynamics to predict potential energy, forces and non-adiabatic couplings.

Constructing high-dimensional neural network potentials: A tutorial review

International Journal of Quantum Chemistry

Machine Learning for Electronically Excited States of Molecules

Automatic discovery of photoisomerization mechanisms with nanosecond machine learning photodynamics simulations


GEAR [GEnetic Analysis Repository], contact chenguobo@gmail.com;

Genomic associations with bill length and disease reveal drift and selection across island bird populations

Characterization of Genetic Diversity and Genome-Wide Association Mapping of Three Agronomic Traits in Qingke Barley (Hordeum Vulgare L.) in the Qinghai-Tibet Plateau

Reproduction and In-Depth Evaluation of Genome-Wide Association Studies and Genome-Wide Meta-analyses Using Summary Statistics

Genetic Diversity and Selection Signatures in Synthetic-Derived Wheats and Modern Spring Wheat


REDItools are python scripts to investigate RNA editing at genomic scale.

REDIportal: millions of novel A-to-I RNA editing events from thousands of RNAseq experiments

A-to-I RNA Editing in Cancer: From Evaluating the Editing Level to Exploring the Editing Effects

Exploring Additional Valuable Information From Single-Cell RNA-Seq Data

Frontiers in cell and developmental biology


Witwicky: An implementation of Transformer in PyTorch.

Overcoming a Theoretical Limitation of Self-Attention

Syntax-Based Attention Masking for Neural Machine Translation

North American Chapter of the Association for Computational Linguistics

Look It Up: Bilingual and Monolingual Dictionaries Improve Neural Machine Translation.

Representing Unordered Data Using Complex-Weighted Multiset Automata

Look It Up: Bilingual Dictionaries Improve Neural Machine Translation


This repo includes the official implementations of "Fine-tune the pretrained ATST model for sound event detection".

ATST: Audio Representation Learning with Teacher-Student Transformer

Self-Supervised Audio Teacher-Student Transformer for Both Clip-Level and Frame-Level Tasks


CEML - Counterfactuals for Explaining Machine Learning models - A Python toolbox

Benchmarking and survey of explanation methods for black box models

On the computation of counterfactual explanations -- A survey

Convex Density Constraints for Computing Plausible Counterfactual Explanations

Keep Your Friends Close and Your Counterfactuals Closer: Improved Learning From Closest Rather Than Plausible Counterfactual Explanations in an Abstract Setting

Conference on Fairness, Accountability and Transparency

Efficient computation of counterfactual explanations of LVQ models

Let's go to the Alien Zoo: Introducing an experimental framework to study usability of counterfactual explanations for machine learning

Ensemble of Counterfactual Explainers

Efficient computation of contrastive explanations

Contrastive Explanations for Explaining Model Adaptations

"Explain it in the Same Way!" -- Model-Agnostic Group Fairness of Counterfactual Explanations


Accompanying repository of our AAAI-20 paper "Fine-Grained Argument Unit Recognition and Classification."

ArgumenText: Argument Classification and Clustering in a Generalized Search Scenario

Active Learning for Argument Mining: A Practical Approach


YOLOV1 to V4 implemented in tensorflow 2 (tf.keras).

You Only Look Once: Unified, Real-Time Object Detection

YOLOv3: An Incremental Improvement

YOLO9000: Better, Faster, Stronger

YOLOv4: Optimal Speed and Accuracy of Object Detection


Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies

Mitohelper: A mitochondrial reference sequence analysis tool for fish eDNA studies


Cooperative game level editor.

Friend, Collaborator, Student, Manager: How Design of an AI-Driven Game Level Editor Affects Creators

Co-Creative Level Design via Machine Learning

Explainability via Responsibility


A package to annotate protein sequences

Fast and sensitive protein alignment using DIAMOND

The Pfam protein families database in 2019

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

CDD/SPARCLE: the conserved domain database in 2020

Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

KofamKOALA: KEGG Ortholog assignment based on profile HMM and adaptive score threshold

The Transporter Classification Database (TCDB): 2021 update

Mantis: flexible and consensus-driven genome annotation

Unification of functional annotation descriptions using text mining


Codes for NeurIPS 2020 paper "Adversarial Weight Perturbation Helps Robust Generalization"

Evaluating the Adversarial Robustness of Adaptive Test-time Defenses

Consistency Regularization for Adversarial Robustness

Efficient and Effective Augmentation Strategy for Adversarial Training

A2: Efficient Automated Attacker for Boosting Adversarial Training

Smoothness Analysis of Adversarial Training

One-vs-the-Rest Loss to Focus on Important Samples in Adversarial Training

Model-Agnostic Meta-Attack: Towards Reliable Evaluation of Adversarial Robustness

Revisiting Adversarial Training under Long-Tailed Distributions


MultiWOZ 2.4: A Multi-Domain Task-Oriented Dialogue Dataset with Essential Annotation Corrections to Improve State Tracking Evaluation

Effective Sequence-to-Sequence Dialogue State Tracking


Repository for the Paper (AAAI 2024, Oral) --- Visual Adversarial Examples Jailbreak Large Language Models

GPT-4 Technical Report

BLIP-2: Bootstrapping Language-Image Pre-training with Frozen Image Encoders and Large Language Models

Flamingo: a Visual Language Model for Few-Shot Learning

Visual Adversarial Examples Jailbreak Aligned Large Language Models


Hypothesis Prioritisation in multi-trait Colocalization

Discovery of rare variants associated with blood pressure regulation through meta-analysis of 1.3 million individuals

Genome-wide association study and functional characterization identifies candidate genes for insulin-stimulated glucose uptake

ezQTL: A Web Platform for Interactive Visualization and Colocalization of QTLs and GWAS Loci

基因组蛋白质组与生物信息学报

Brain Banks Spur New Frontiers in Neuropsychiatric Research and Strategies for Analysis and Validation

基因组蛋白质组与生物信息学报

A robust and efficient method for Mendelian randomization with hundreds of genetic variants: unravelling mechanisms linking HDL-cholesterol and coronary heart disease

Enhancer promoter interactome and Mendelian randomization identify network of druggable vascular genes in coronary artery disease

A Trans-Omic Mendelian Randomization Study of Parental Lifespan Uncovers Novel Aging Biology and Drug Candidates for Human Healthspan Extension

Genetic control of body weight by the human brain proteome


MoDELib is the Mechanics of Defects Evolution Library, a c++ template library for computer simulations of defects in crystalline materials.

A discrete dislocation dynamics study of precipitate bypass mechanisms in nickel-based superalloys

Mild-to-wild plastic transition is governed by athermal screw dislocation slip in bcc Nb

Incompatible strain gradient elasticity of Mindlin type: screw and edge dislocations


MUUFL Gulfport Hyperspectral and LIDAR Data: This data set includes HSI and LIDAR data, Scoring Code, Photographs of Scene, Description of Data

Deep Learning in Multimodal Remote Sensing Data Fusion: A Comprehensive Review

Multi-Target Multiple Instance Learning for Hyperspectral Target Detection

Spectral–Spatial Complementary Decision Fusion for Hyperspectral Anomaly Detection

Adaptive Learnable Spectral-Spatial Fusion Transformer for Hyperspectral Image Classification


Goal driven language generation using knowledge graph A2C agents

Graph Constrained Reinforcement Learning for Natural Language Action Spaces

Reinforcement learning on graphs: A survey

How To Avoid Being Eaten By a Grue: Exploration Strategies for Text-Adventure Agents


Official implementation for "EGSDE: Unpaired Image-to-Image Translation via Energy-Guided Stochastic Differential Equations" (NIPS 2022)

Diffusion Models Beat GANs on Image Synthesis

Equivariant Energy-Guided SDE for Inverse Molecular Design

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

UVCGAN v2: An Improved Cycle-Consistent GAN for Unpaired Image-to-Image Translation

SAMScore: A Semantic Structural Similarity Metric for Image Translation Evaluation


[EACL'23] MCoNaLa: A Benchmark for Code Generation from Multiple Natural Languages

Incorporating External Knowledge through Pre-training for Natural Language to Code Generation

Deep Learning Based Code Generation Methods: A Literature Review

Generative Software Engineering


Analysis of antibody NGS data

Commonality despite exceptional diversity in the baseline human antibody repertoire

Systems Biology Methods Applied to Blood and Tissue for a Comprehensive Analysis of Immune Response to Hepatitis B Vaccine in Adults

Recognition determinants of improved HIV-1 neutralization by a heavy chain matured pediatric antibody

B cell repertoire sequencing of HIV-1 pediatric elite-neutralizers identifies multiple broadly neutralizing antibody clonotypes

Antigen pressure from two founder viruses induces multiple insertions at a single antibody position to generate broadly neutralizing HIV antibodies


The official implementation for  ECCV22 paper: "FOSTER: Feature Boosting and  Compression for Class-Incremental Learning" in PyTorch.

Dynamic Residual Classifier for Class Incremental Learning

CL2R: Compatible Lifelong Learning Representations

ACM Transactions on Multimedia Computing, Communications, and Applications


compact Earth system model

Historical CO2 emissions from land use and land cover change and their uncertainty

Path-dependent reductions in CO2 emission budgets caused by permafrost carbon release

Reduced Complexity Model Intercomparison Project Phase 1: introduction and evaluation of global-mean temperature response

Aligning climate scenarios to emissions inventories shifts global benchmarks

How the Glasgow Declaration on Forests can help keep alive the 1.5 °C target

Supplementary material to "Reduced complexity model intercomparison project phase 1: Protocol, results and initial observations"

Source Attributions of Radiative Forcing by Regions, Sectors, and Climate Forcers


Full Python implementation of the ROUGE metric, producing same results as in the official perl implementation.

Countering the Effects of Lead Bias in News Summarization via Multi-Stage Training and Auxiliary Losses

DebateSum: A large-scale argument mining and summarization dataset

Unsupervised Aspect-Based Multi-Document Abstractive Summarization

Proceedings of the 2nd Workshop on New Frontiers in Summarization

DialSummEval: Revisiting Summarization Evaluation for Dialogues

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

Autoregressive Knowledge Distillation through Imitation Learning

Less is More for Long Document Summary Evaluation by LLMs

Comparative Opinion Summarization via Collaborative Decoding

A comprehensive review of automatic text summarization techniques: method, data, evaluation and coding

A Summarization Dataset of Slovak News Articles

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

Dependency-based Text Graphs for Keyphrase and Summary Extraction with Applications to Interactive Content Retrieval


Implementation of the SoftAdapt paper (techniques for adaptive loss balancing of multi-tasking neural networks)

SoftAdapt: Techniques for Adaptive Loss Weighting of Neural Networks with Multi-Part Loss Functions

Going Beyond Classification Accuracy Metrics in Model Compression

VI-PINNs: Variance-involved Physics-informed Neural Networks for Fast and Accurate Prediction of Partial Differential Equations

A Variational Auto-Encoder for Reservoir Monitoring


(m)6A (I)dentification Using (N)anopor(E) (S)equencing

Detection of m6A from direct RNA sequencing using a multiple instance learning framework

Full-Length Transcriptome of the Whale Shark (Rhincodon typus) Facilitates the Genome Information

Analysis approaches for the identification and prediction of N6-methyladenosine sites


[Re] Can gradient clipping mitigate label noise? (ML Reproducibility Challenge 2020)

Deep Residual Learning for Image Recognition

Generalized Cross Entropy Loss for Training Deep Neural Networks with Noisy Labels

Learning from Noisy Labels with Deep Neural Networks: A Survey

International Conference on Learning Representations

Learning with Symmetric Label Noise: The Importance of Being Unhinged


WRIME: A New Dataset for Emotional Intensity Estimation with Subjective and Objective Annotations

A Japanese Dataset for Subjective and Objective Sentiment Polarity Classification in Micro Blog Domain

LREC 2022: THIRTEEN INTERNATIONAL CONFERENCE ON LANGUAGE RESOURCES AND EVALUATION

Emotion Analysis of Writers and Readers of Japanese Tweets on Vaccinations

Workshop on Computational Approaches to Subjectivity, Sentiment and Social Media Analysis

Expressions Causing Differences in Emotion Recognition in Social Networking Service Documents

Proceedings of the 31st ACM International Conference on Information & Knowledge Management


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


Marine Debris Datasets captured with a Forward-Looking Sonar in a water tank and turntable

A Survey of Underwater Acoustic Data Classification Methods Using Deep Learning for Shoreline Surveillance

Feature Pyramid U-Net with Attention for Semantic Segmentation of Forward-Looking Sonar Images

Forward-Looking Sonar Patch Matching: Modern CNNs, Ensembling, and Uncertainty


Tool to calculate the best dispersion measure for a burst using phase information.

Periodic activity from a fast radio burst source

Nine New Repeating Fast Radio Burst Sources from CHIME/FRB

Chromatic periodic activity down to 120 MHz in a Fast Radio Burst

A fast radio burst source at a complex magnetised site in a barred galaxy

Discovery of a radio-emitting neutron star with an ultra-long spin period of 76 s

Repeating fast radio bursts with WSRT/Apertif

Polarization properties of FRB 20201124A from detections with the Effelsberg 100-m radio telescope

The FRB 20121102A November rain in 2018 observed with the Arecibo Telescope

Burst properties of the highly active FRB20201124A using uGMRT

Monthly notices of the Royal Astronomical Society

An analysis of the time-frequency structure of several bursts from FRB 121102 detected with MeerKAT


CVPR 2022 | Target-aware Dual Adversarial Learning and a Multi-scenario Multi-Modality Benchmark to Fuse Infrared and Visible for Object Detection.

Image Fusion via Vision-Language Model

FFA-GAN: A Generative Adversarial Network Based on Feature Fusion Attention for Intelligent Safety Monitoring


Probabilistic machine learning for reconstruction and parametrization of electronic band sturcture from photoemission spectroscopy data

A machine learning route between band mapping and band structure

Dataset of photoemission valence-band mapping and band reconstruction of 2H-WSe2

Zenodo (CERN European Organization for Nuclear Research)

Excited-state photoemission band mapping data of the topological insulator Bi2Te2Se


Official implementation of the paper Stochastic Latent Residual Video Prediction

Stochastic Image-to-Video Synthesis using cINNs

Understanding Object Dynamics for Interactive Image-to-Video Synthesis

iPOKE: Poking a Still Image for Controlled Stochastic Video Synthesis

Unsupervised Video Prediction from a Single Frame by Estimating 3D Dynamic Scene Structure


ISWC 2020 Tutorial: How to build large knowledge graphs efficiently (LKGT)

Ontop: Answering SPARQL queries over relational databases

LIMES - A Time-Efficient Approach for Large-Scale Link Discovery on the Web of Data

International Joint Conference on Artificial Intelligence

HoloClean: Holistic Data Repairs with Probabilistic Inference

Test-driven evaluation of linked data quality

WWW'14: PROCEEDINGS OF THE 23RD INTERNATIONAL CONFERENCE ON WORLD WIDE WEB

Sieve: linked data quality assessment and fusion

Type Inference on Noisy RDF Data

Improving the Quality of Linked Data Using Statistical Distributions

International Journal on Semantic Web and Information Systems (IJSWIS)

LOD Laundromat: A Uniform Way of Publishing Other People’s Dirty Data

Assessing linked data mappings using network measures

Luzzu—A Methodology and Framework for Linked Data Quality Assessment


Display and fit Optical (spectro-)Interferometric OIFITS data

HR 6819 is a binary system with no black hole

Dynamical Masses of the Primary Be Star and Secondary sdB Star in the Single-lined Binary κ Dra (B6 IIIe)

Flexible Spectro Interferometric modelling of OIFITS data with PMOIRED

Resolving the dynamical mass tension of the massive binary 9 Sagittarii

The origin of close massive binaries in the M17 star-forming region

Imaging the Inner Astronomical Unit of the Herbig Be Star HD 190073

Transition disc nature of post-AGB binary systems confirmed by mid-infrared interferometry

The Araucaria project: High-precision orbital parallaxes and masses of binary stars

The binary system of the spinning-top Be star Achernar

Tracing a decade of activity towards a yellow hypergiant. The spectral and spatial morphology of IRC+10420 at au scales


An R Interface and Post-Processing Framework for PhenoCam Web Services

Tracking vegetation phenology across diverse biomes using Version 2.0 of the PhenoCam Dataset


MESHOID: MESHless Operations such as Integrals and Derivatives

Strong Dark Matter Self-interactions Diversify Halo Populations within and surrounding the Milky Way

The global structure of magnetic fields and gas in simulated Milky Way-analogue galaxies


Distributed Retrieval Evaluation Server

Interactive video retrieval evaluation at a distance: comparing sixteen interactive video search systems in a remote setting at the 10th Video Browser Showdown

International journal of multimedia information retrieval

A System for Interactive Multimedia Retrieval Evaluations

A tale of two interfaces: vitrivr at the lifelog search challenge


Repeats

Detection, Rectification and Segmentation of Coplanar Repeated Patterns

Minimal Solvers for Rectifying From Radially-Distorted Conjugate Translations

IEEE transactions on pattern analysis and machine intelligence

Rectification from Radially-Distorted Scales

Minimal Solvers for Rectifying from Radially-Distorted Scales and Change of Scales

International Journal of Computer Vision


Codes to generate limb-darkening coefficients using arbitrary response functions as explained in Espinoza & Jordan (2015)

Limb darkening and exoplanets: testing stellar model atmospheres and identifying biases in transit parameters

Monthly Notices of the Royal Astronomical Society

Limb darkening and exoplanets – II. Choosing the best law for optimal retrieval of transit parameters

Planetary system LHS 1140 revisited with ESPRESSO and TESS

Near-ultraviolet Transmission Spectroscopy of HD 209458b: Evidence of Ionized Iron Beyond the Planetary Roche Lobe

Empirical Limb-darkening Coefficients and Transit Parameters of Known Exoplanets from TESS

An Independent Analysis of the Spitzer/IRAC Phase Curves of WASP43 b

A detailed analysis of the Gl 486 planetary system

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

Exploiting the transit timing capabilities of Ariel

TOI-199 b: A Well-characterized 100 day Transiting Warm Giant Planet with TTVs Seen from Antarctica


Personalized Federated Learning with Moreau Envelopes (pFedMe) using Pytorch  (NeurIPS 2020)

Personalized Federated Learning with First Order Model Optimization

FedLab: A Flexible Federated Learning Framework

Efficient Distribution Similarity Identification in Clustered Federated Learning via Principal Angles Between Client Data Subspaces

Rethinking Data Heterogeneity in Federated Learning: Introducing a New Notion and Standard Benchmarks

FedMe: Federated Learning via Model Exchange

FedDWA: Personalized Federated Learning with Dynamic Weight Adjustment

Federated Prompt Learning for Weather Foundation Models on Devices

MAP: Model Aggregation and Personalization in Federated Learning with
  Incomplete Classes

A Generative Framework for Personalized Learning and Estimation: Theory, Algorithms, and Privacy


Accurate assembly of minority viral haplotypes from next-generation sequencing through efficient noise reduction

Reconstruction of Microbial Haplotypes by Integration of Statistical and Physical Linkage in Scaffolding

A beginner’s guide for FMDV quasispecies analysis: sub-consensus variant detection and haplotype reconstruction using next-generation sequencing

HAPHPIPE: Haplotype Reconstruction and Phylodynamics for Deep Sequencing of Intrahost Viral Populations


icSHAPE pipeline

Structural imprints in vivo decode RNA regulatory mechanisms

Structural disruption of exonic stem–loops immediately upstream of the intron regulates mammalian splicing

RNAnue: efficient data analysis for RNA–RNA interactomics

The snoGloBe interaction predictor reveals a broad spectrum of C/D snoRNA RNA targets


Create statistic summary of an Oxford Nanopore read dataset

Detection of hidden antibiotic resistance through real-time genomics

Microbiota based personalized nutrition improves hyperglycaemia and hypertension parameters and reduces inflammation: A prospective, open label, controlled, randomized, comparative, proof of concept study

Exact breakpoints of the In(1)w m4 rearrangement.


Code for localizing variable star signatures in TESS Photometry

Hot subdwarfs in close binaries observed from space

Localizing Sources of Variability in Crowded TESS Photometry

Contamination in TESS Light Curves: The Case of the Fast Yellow Pulsating Supergiants

Searching for TESS Photometric Variability of Possible JWST Spectrophotometric Standard Stars

The bright blue side of the night sky: Spectroscopic survey of bright and hot (pre-) white dwarfs

Kepler and TESS Observations of PG 1159-035

Rotation plays a role in the generation of magnetic fields in single white dwarfs

Photometric variability of the LAMOST sample of magnetic chemically peculiar stars as seen by TESS


FastONN - Python based open-source GPU implementation for Operational Neural Networks

Self-Organized Operational Neural Networks with Generative Neurons

Global ECG Classification by Self-Operational Neural Networks With Feature Injection

FastONN -- Python based open-source GPU implementation for Operational Neural Networks

Blind Restoration of Real-World Audio by 1D Operational GANs


Learning deep kernels for exponential family densities

Exponential Family Estimation via Adversarial Dynamics Embedding

Bridging the Gap Between f-GANs and Wasserstein GANs

Batch Stationary Distribution Estimation


This is the qualR package, it will help you bring São Paulo and Rio de Janeiro air quality data to your R session :brazil:.


RaMa-Scene a web-platform to analyse Environmentally Extended Input-Output data and generate scenarios


A suite of stochastic optimization methods for solving the empirical risk minimization problem.

Stochastic quasi-gradient methods: variance reduction via Jacobian sketching

Optimal mini-batch and step sizes for SAGA

Tracking the gradients using the Hessian: A new look at variance reducing stochastic methods

Towards closing the gap between the theory and practice of SVRG


kinfitr: PET Kinetic Modelling Using R

Open and reproducible neuroimaging: From study inception to publication

PET-BIDS, an extension to the brain imaging data structure for positron emission tomography

Assessment of simplified ratio-based approaches for quantification of PET [11C]PBR28 data

D1-Dopamine Receptor Availability in First-Episode Neuroleptic Naive Psychosis Patients

The international journal of neuropsychopharmacology

Accuracy and reliability of [11C]PBR28 specific binding estimated without the use of a reference region

kinfitr: Reproducible PET Pharmacokinetic Modelling in R


This is a Genome Annotation Framework developed with the goal of annotating VCF files (Exomes or Genomes) from patients with Mendelian Disorders.

A Systematic Survey of Loss-of-Function Variants in Human Protein-Coding Genes

Comparison and integration of deleteriousness prediction methods for nonsynonymous SNVs in whole exome sequencing studies

Characterising and Predicting Haploinsufficiency in the Human Genome

A "Copernican" reassessment of the human mitochondrial DNA tree from its root.

The human gene damage index as a gene-level approach to prioritizing exome variants

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

From Mouse to Human: Evolutionary Genomics Analysis of Human Orthologs of Essential Genes

Calculating the statistical significance of rare variants causal for Mendelian and complex disorders

Mendel,MD: A user-friendly open-source web tool for analyzing WES and WGS in the diagnosis of patients with Mendelian disorders


Gromov-Wasserstein based optimal transport for aligning single-cell multi-omics data

Gromov-Wasserstein optimal transport to align single-cell multi-omics data

Manifold alignment for heterogeneous single-cell multi-omics data integration using Pamona

The Unbalanced Gromov Wasserstein Distance: Conic Formulation and Relaxation

Linear-Time Gromov Wasserstein Distances using Low Rank Couplings and Costs

Distributional Reduction: Unifying Dimensionality Reduction and
  Clustering with Gromov-Wasserstein Projection


fastACI toolbox: the MATLAB toolbox for investigating auditory perception using reverse correlation.

Raw and post-processed data for the microscopic investigation of the effect of random envelope fluctuations on phoneme-in-noise perception


Deep mutational scanning of the receptor-binding domain of SARS-CoV-2 Spike

Deep Mutational Scanning of SARS-CoV-2 Receptor Binding Domain Reveals Constraints on Folding and ACE2 Binding

bioRxiv : the preprint server for biology

Mapping mutations to the SARS-CoV-2 RBD that escape binding by different classes of antibodies

Epistatic models predict mutable sites in SARS-CoV-2 proteins and epitopes

Mutational escape from the polyclonal antibody response to SARS-CoV-2 infection is largely shaped by a single class of antibodies

Predicting the antigenic evolution of SARS-COV-2 with deep learning

Globally defining the effects of mutations in a picornavirus capsid

Design of immunogens for eliciting antibody responses that may protect against SARS-CoV-2 variants

Complete Combinatorial Mutational Enumeration of a protein functional site enables sequence-landscape mapping and identifies highly-mutated variants that retain activity


SemEval 2024 Task 1 : Textual Semantic Relatedness

SemRel2024: A Collection of Semantic Textual Relatedness Datasets for 14
  Languages

SemEval Task 1: Semantic Textual Relatedness for African and Asian Languages

LLMs Are Few-Shot In-Context Low-Resource Language Learners


An SMT Solver for string constraints

CertiStr: a certified string solver

Monadic Decomposition in Integer Linear Arithmetic

Parikh's Theorem Made Symbolic


EHT Image domain analysis through template matching.

First Sagittarius A* Event Horizon Telescope Results. III. Imaging of the Galactic Center Supermassive Black Hole

First Sagittarius A* Event Horizon Telescope Results. IV. Variability, Morphology, and Black Hole Mass

Variational Image Feature Extraction for the Event Horizon Telescope

Measuring the Ellipticity of M 87* Images

Observing naked singularities by the present and next-generation Event Horizon Telescope


Topological data analysis: Concepts, computation, and applications in chemical engineering

The Euler characteristic: A general topological descriptor for complex data

Convolutional neural nets in chemical engineering: Foundations, computations, and applications

Image-Based Model Predictive Control via Dynamic Mode Decomposition

Counterfactual Learning on Graphs: A Survey

Data analysis using Riemannian geometry and applications to chemical engineering

A Graph-Based Modeling Framework for Tracing Hydrological Pollutant Transport in Surface Waters


A framework for composing Neural Processes in Python

Neural Diffusion Processes

Autoregressive Conditional Neural Processes

Environmental sensor placement with convolutional Gaussian neural processes

Practical Equivariances via Relational Conditional Neural Processes

Sim2Real for Environmental Neural Processes


A detailed transport sector model.


BayesfMRI R package

ciftiTools: A package for reading, writing, visualizing, and manipulating CIFTI files in R

Parallelized integrated nested Laplace approximations for fast Bayesian inference

Spatial Bayesian GLM on the cortical surface produces reliable task activations in individuals and groups


simona is an agent-based discrete-event power system simulation model developed @ie3-institute


Contains the REMIND-specific routines for data and model output manipulation.


Fast-GBS: a new pipeline for the efficient and highly accurate calling of SNPs from genotyping-by-sequencing data

Uridylation by TUT4/7 Restricts Retrotransposition of Human LINE-1s

A comparison of genotyping-by-sequencing analysis methods on low-coverage crop datasets shows advantages of a new workflow, GB-eaSy

Dietary Bacillus spp. enhanced growth and disease resistance of weaned pigs by modulating intestinal microbiota and systemic immunity

Genome-Wide Association and Genomic Prediction for Fry Color in Potato

Genome-Wide High-Throughput Screening to Investigate Essential Genes Involved in Methicillin-Resistant Staphylococcus aureus Sequence Type 398 Survival

Phytophthora betacei, a new species within Phytophthora clade 1c causing late blight on Solanum betaceum in Colombia

Persoonia - Molecular Phylogeny and Evolution of Fungi

Mitochondrial Genomes from New Zealand’s Extinct Adzebills (Aves: Aptornithidae: Aptornis) Support a Sister-Taxon Relationship with the Afro-Madagascan Sarothruridae

Genetic diversity and phylogeny of South African Meloidogyne populations using genotyping by sequencing

Targeted Capture of Phylogenetically Informative Ves SINE Insertions in Genus Myotis


Fourier Neural Operator for Parametric Partial Differential Equations

Learning nonlinear operators via DeepONet based on the universal approximation theorem of operators

Neural Operator: Graph Kernel Network for Partial Differential Equations

Learning Dissipative Dynamics in Chaotic Systems


A library for easily merging multiple LLM experts, and efficiently train the merged LLM.

Mamba: Linear-Time Sequence Modeling with Selective State Spaces

Branch-Train-Merge: Embarrassingly Parallel Training of Expert Language Models

MOELoRA: An MOE-based Parameter Efficient Fine-Tuning Method for Multi-task Medical Applications

Branch-Train-MiX: Mixing Expert LLMs into a Mixture-of-Experts LLM

Learning to Route Among Specialized Experts for Zero-Shot Generalization

MoELoRA: Contrastive Learning Guided Mixture of Experts on
  Parameter-Efficient Fine-Tuning for Large Language Models

X-LoRA: Mixture of Low-Rank Adapter Experts, a Flexible Framework for
  Large Language Models with Applications in Protein Mechanics and Design

Mixture-of-LoRAs: An Efficient Multitask Tuning for Large Language
  Models


Phenome Exome Association and Correlation Of Key phenotypes

Rare variant contribution to human disease in 281,104 UK Biobank exomes

Rare variant associations with plasma protein levels in the UK Biobank

Human genetics uncovers MAP3K15 as an obesity-independent therapeutic target for diabetes


Translation of the MeCab documentation to English

Evaluating a Multi-sense Definition Generation Model for Multiple Languages

Surrounding Word Sense Model for Japanese All-words Word Sense Disambiguation

Pacific Asia Conference on Language, Information, and Computation

A Comparison of Two Fluctuation Analyses for Natural Language Clustering Phenomena: Taylor and Ebeling & Neiman Methods


DeepSeek-Coder-V2: Breaking the Barrier of Closed-Source Models in Code
  Intelligence

Step-DPO: Step-wise Preference Optimization for Long-chain Reasoning of LLMs

MathOdyssey: Benchmarking Mathematical Problem-Solving Skills in Large
  Language Models Using Odyssey Math Data


Code for NIPS 2017 spotlight paper: "Near-linear time approximation algorithms for optimal transport via Sinkhorn iteration" by Jason Altschuler, Jonathan Weed, and Philippe Rigollet. Full paper available at: https://papers.nips.cc/paper/6792-near-linear-time-approximation-algorithms-for-optimal-transport-via-sinkhorn-iteration.

Screening Sinkhorn Algorithm for Regularized Optimal Transport

A Graph Theoretic Additive Approximation of Optimal Transport

Optimal Transport for Stationary Markov Chains via Policy Iteration


PyTorch implementation of NICE

NICE: Non-linear Independent Components Estimation

Projected Latent Markov Chain Monte Carlo: Conditional Sampling of Normalizing Flows


A Mathematica package for generating gravitational waveforms for nonspinning eccentric binary black hole mergers

Eccentric binary black hole inspiral-merger-ringdown gravitational waveform model from numerical relativity and post-Newtonian theory

Adding eccentricity to quasicircular binary-black-hole waveform models

Generalized quasi-Keplerian solution for eccentric, nonspinning compact binaries at 4PN order and the associated inspiral-merger-ringdown waveform

Study of eccentric binary black hole mergers using numerical relativity
  and an inspiral-merger-ringdown model


The ATIS (Airline Travel Information System) Dataset

CoDa: Constrained Generation based Data Augmentation for Low-Resource
  NLP

Understanding User Intent Modeling for Conversational Recommender Systems: A Systematic Literature Review

ABEX: Data Augmentation for Low-Resource NLU via Expanding Abstract
  Descriptions


Matrix and Tensor Completion for Background Model Initialization

Riemannian preconditioned algorithms for tensor completion via tensor ring decomposition

Low-rank Tensor Learning with Nonconvex Overlapped Nuclear Norm Regularization

Tensor Completion via Tensor Networks with a Tucker Wrapper


MATLAB codes for matrix exponential times a vector.

Computing the Action of the Matrix Exponential, with an Application to Exponential Integrators

Designing quantum experiments with a genetic algorithm

Gene-Specific Linear Trends Constrain Transcriptional Variability of the Toll-like Receptor Signaling

Limited-memory polynomial methods for large-scale matrix functions

Integral representations for higher-order Fréchet derivatives of matrix functions: Quadrature algorithms and new results on the level-2 condition number

A New Algorithm for Computing the Actions of Trigonometricand Hyperbolic Matrix Functions

Krylov subspace restarting for matrix Laplace transforms


Author's PyTorch implementation of TD3+BC, a simple variant of TD3 for offline RL

A Minimalist Approach to Offline Reinforcement Learning

Pessimistic Bootstrapping for Uncertainty-Driven Offline Reinforcement Learning

Mildly Conservative Q-Learning for Offline Reinforcement Learning

CORL: Research-oriented Deep Offline Reinforcement Learning Library

Supported Policy Optimization for Offline Reinforcement Learning

A Policy-Guided Imitation Approach for Offline Reinforcement Learning

Plan Better Amid Conservatism: Offline Multi-Agent Reinforcement Learning with Actor Rectification

Versatile Offline Imitation from Observations and Examples via Regularized State-Occupancy Matching

For SALE: State-Action Representation Learning for Deep Reinforcement Learning

Boosting Offline Reinforcement Learning via Data Rebalancing


A benchmark of UCAS-AOD dataset.

YOLOv3: An Incremental Improvement

DOTA: A Large-scale Dataset for Object Detection in Aerial Images

Align Deep Features for Oriented Object Detection

Dynamic Anchor Learning for Arbitrary-Oriented Object Detection

A Lightweight Keypoint-Based Oriented Object Detection of Remote Sensing Images

DAFNe: A One-Stage Anchor-Free Approach for Oriented Object Detection


Infer Community Assembly Mechanisms by Phylogenetic bin-based null model analysis (Version 1)

Future climate conditions accelerate wheat straw decomposition alongside altered microbial community composition, assembly patterns, and interaction networks

Salinity Gradient Controls Microbial Community Structure and Assembly in Coastal Solar Salterns

Forest succession improves the complexity of soil microbial interaction and ecological stochasticity of community assembly: Evidence from Phoebe bournei-dominated forests in subtropical regions

Seasonal variations of microbial community structure, assembly processes, and influencing factors in karst river

Biochar Addition Altered Bacterial Community and Improved Photosynthetic Rate of Seagrass: A Mesocosm Study of Seagrass Thalassia hemprichii

Niche Modification by Sulfate-Reducing Bacteria Drives Microbial Community Assembly in Anoxic Marine Sediments

Tree mycorrhizal type regulates leaf and needle microbial communities, affects microbial assembly and co-occurrence network patterns, and influences litter decomposition rates in temperate forest


Code and documentation supporting Markello & Misic, 2021, "Comparing spatial null models for brain maps" (NeuroImage)

Time-resolved structure-function coupling in brain networks

Hierarchical fluctuation shapes a dynamic flow linked to states of consciousness


GENIUS – generating text using sketches! A strong text generation & data augmentation tool.

GENIUS: Sketch-based Language Model Pre-training via Extreme and Selective Masking for Text Generation and Augmentation

CoDa: Constrained Generation based Data Augmentation for Low-Resource
  NLP

ABEX: Data Augmentation for Low-Resource NLU via Expanding Abstract
  Descriptions


Koopman operator identification library in Python, compatible with `scikit-learn`

Modern Koopman Theory for Dynamical Systems

The Multiverse of Dynamic Mode Decomposition Algorithms

System Norm Regularization Methods for Koopman Operator Approximation

Linear Matrix Inequality Approaches to Koopman Operator Approximation

Forward-Backward Extended DMD with an Asymptotic Stability Constraint


Code for Interpretable Adversarial Perturbation in Input Embedding Space for Text, IJCAI 2018.

Towards a Robust Deep Neural Network in Texts: A Survey

Interpretable Adversarial Training for Text


Urdu Language Speech Emotional Corpus

Cross corpus multi-lingual speech emotion recognition using ensemble learning

Cross Lingual Speech Emotion Recognition: Urdu vs. Western Languages

Introducing the Urdu-Sindhi Speech Emotion Corpus: A Novel Dataset of Speech Recordings for Emotion Recognition for Two Low-Resource Languages

International Journal of Advanced Computer Science and Applications


code for NeurIPS_competition

EEGNet: a compact convolutional neural network for EEG-based brain–computer interfaces

Maximum Classifier Discrepancy for Unsupervised Domain Adaptation

A deep learning architecture for temporal sleep stage classification using multivariate and multimodal time series

Transfer Learning for Brain–Computer Interfaces: A Euclidean Space Data Alignment Approach

2021 BEETL Competition: Advancing Transfer Learning for Subject Independence & Heterogenous EEG Data Sets


Development of Antibody-Based PROTACs for the Degradation of the Cell-Surface Immune Checkpoint Protein PD-L1

Journal of the American Chemical Society

Deep Generative Models for 3D Linker Design

Journal of chemical information and modeling

TF-PROTACs Enable Targeted Degradation of Transcription Factors

RNA‐PROTACs: Degraders of RNA‐Binding Proteins

Proteolysis‐targeting chimeras in drug development: A safety perspective

In Silico Modeling of PROTAC-Mediated Ternary Complexes: Validation and Application

Prey for the Proteasome: Targeted Protein Degradation—A Medicinal Chemist's Perspective

PRosettaC: Rosetta Based Modeling of PROTAC Mediated Ternary Complexes

Covalently Engineered Nanobody Chimeras for Targeted Membrane Protein Degradation

Antibody-Mediated Delivery of Chimeric BRD4 Degraders. Part 2: Improvement of In Vitro Antiproliferation Activity and In Vivo Antitumor Efficacy.


Code and data for the FACTOR paper

The RefinedWeb Dataset for Falcon LLM: Outperforming Curated Corpora with Web Data, and Web Data Only

Generating Benchmarks for Factuality Evaluation of Language Models

ExpertQA: Expert-Curated Questions and Attributed Answers


A short tutorial for creating a species distribution model using QGIS, R, and MaxEnt.

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

Opening the black box: an open-source release of Maxent

Presence‐only modelling using MAXENT: when can we trust the inferences?

MaxEnt’s parameter configuration and small samples: are we paying attention to recommendations? A systematic review


DeepCF: A Unified Framework of Representation Learning and Matching Function Learning in Recommender System

Broad Recommender System: An Efficient Nonlinear Collaborative Filtering Approach

Partial Relaxed Optimal Transport for Denoised Recommendation

Simultaneous Learning of the Inputs and Parameters in Neural Collaborative Filtering

Dual-embedding based Neural Collaborative Filtering for Recommender Systems

One-class Recommendation Systems with the Hinge Pairwise Distance Loss and Orthogonal Representations


Posterior Analysis of Coalescent Trees

The episodic resurgence of highly pathogenic avian influenza H5 virus

Combining genomics and epidemiology to track mumps virus transmission in the United States

H5Nx Viruses Emerged during the Suppression of H5N1 Virus Populations in Poultry


Industrial datasets - datasets for evaluating industrial intrusion detection systems on IPAL.

A Hardware-in-the-Loop Water Distribution Testbed Dataset for Cyber-Physical Security Testing

Timing-Based Anomaly Detection in SCADA Networks

Process Control Cyber-Attacks and Labelled Datasets on S7Comm Critical Infrastructure

Intrusion Detection for Sequence-Based Attacks with Reduced Traffic Models

Messung, Modellierung und Bewertung von Rechen- und Kommunikationssystemen

Cybersecurity Research and Training for Power Distribution Grids -- A Blueprint

Conference on Computer and Communications Security


Active Learning for Graph Embedding

Active Learning for Graph Embedding

Active Learning for Node Classification: The Additional Learning Ability from Unlabelled Nodes.

Class-Balanced and Reinforced Active Learning on Graphs


Position Focused Attention Network for Image-Text Matching

More Than Just Attention: Improving Cross-Modal Attentions with Contrastive Constraints for Image-Text Matching

Survey of Visual-Semantic Embedding Methods for Zero-Shot Image Retrieval


Toolbox for large scale subspace clustering

Scalable Sparse Subspace Clustering by Orthogonal Matching Pursuit

Oracle Based Active Set Algorithm for Scalable Elastic Net Subspace Clustering

Unsupervised Manifold Linearizing and Clustering


Efficient Wasserstein Barycenter in MATLAB (for "Fast Discrete Distribution Clustering Using Wasserstein Barycenter with Sparse Support" TSP)

Fast Discrete Distribution Clustering Using Wasserstein Barycenter With Sparse Support

A Fast Globally Linearly Convergent Algorithm for the Computation of Wasserstein Barycenters

Interior-Point Methods Strike Back: Solving the Wasserstein Barycenter Problem

Dimensionality Reduction for Wasserstein Barycenter

Simple approximative algorithms for free-support Wasserstein barycenters

Approximative Algorithms for Multi-Marginal Optimal Transport and Free-Support Wasserstein Barycenters

Fuzzy c-Means Clustering for Persistence Diagrams


Utilizing Deep Learning to detect COVID-19 and Viral Pneumonia from x-ray images

COVID-Net: A Tailored Deep Convolutional Neural Network Design for Detection of COVID-19 Cases from Chest X-Ray Images

Deep Learning COVID-19 Features on CXR using Limited Training Data Sets

A Deep Learning Approach for COVID-19 8 Viral Pneumonia Screening with X-ray Images

Digital Government Research and Practice


Contrastive Learning (SimCLR) for Human Activity Recognition

Exploring Contrastive Learning in Human Activity Recognition for Healthcare

Assessing the State of Self-Supervised Human Activity Recognition Using Wearables

A Co-training Approach for Noisy Time Series Learning

Proceedings of the 32nd ACM International Conference on Information and Knowledge Management

Evaluating Large Language Models as Virtual Annotators for Time-series
  Physical Sensing Data

Cross-Domain HAR: Few Shot Transfer Learning for Human Activity Recognition


Network: FCN, U-Net, Unet+Resblock(DeepUNet), Squeeze+UNet, DenseNet+UNet(DenseUnet)...

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

Road Extraction by Deep Residual U-Net

IEEE Geoscience and Remote Sensing Letters

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


Example data for R/qtl2

R/qtl2: Software for Mapping Quantitative Trait Loci with High-Dimensional Data and Multiparent Populations

Cleaning Genotype Data from Diversity Outbred Mice

Testing pleiotropy vs. separate QTL in multiparental populations

A generic hidden Markov model for multiparent populations


Implementation of ECO-DQN as reported in "Exploratory Combinatorial Optimization with Reinforcement Learning".

Neural Message Passing for Quantum Chemistry

Learning Combinatorial Optimization Algorithms over Graphs

One Model, Any CSP: Graph Neural Networks as Fast Global Search Heuristics for Constraint Satisfaction

Learning to Solve Combinatorial Graph Partitioning Problems via Efficient Exploration


Official PyTorch Implementation for Fast Adaptive Multitask Optimization (FAMO)

Gradient Surgery for Multi-Task Learning

Conflict-Averse Gradient Descent for Multi-task Learning

Multi-Task Learning as a Bargaining Game

FAMO: Fast Adaptive Multitask Optimization


MOMENTA: A Multimodal Framework for Detecting Harmful Memes and Their Targets

Pro-Cap: Leveraging a Frozen Vision-Language Model for Hateful Meme Detection

Zero shot VLMs for hate meme detection: Are we there yet?


The Australian Shark-Incident Database (ASID) for quantifying temporal and spatial patterns of shark-human conflict in Australia

Changing patterns of shark attacks in Australian waters

Global shark attack hotspots: Identifying underlying factors behind increased unprovoked shark bite incidence

Environmental predictive models for shark attacks in Australian waters

Predicting potential future reduction in shark bites on people


MNIST classification using Multi-Layer Perceptron (MLP) with 2 hidden layers. Some weight-initializers and batch-normalization are implemented.

Delving Deep into Rectifiers: Surpassing Human-Level Performance on ImageNet Classification

Orthogonal Over-Parameterized Training

Learning with Hyperspherical Uniformity


Investigation of End-To-End Speaker-Attributed ASR for Continuous Multi-Talker Recordings

Streaming End-to-End Multi-Talker Speech Recognition

Streaming Multi-talker Speech Recognition with Joint Speaker Identification

Endpoint Detection for Streaming End-to-End Multi-talker ASR

Minimum Bayes Risk Training for End-to-End Speaker-Attributed ASR


reference-based long read assemblies of bacterial genomes

Performance of neural network basecalling tools for Oxford Nanopore sequencing

Spectral Jaccard Similarity: A New Approach to Estimating Pairwise Sequence Alignments

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

Complete Genome of Lactobacillus iners KY Using Flongle Provides Insight Into the Genetic Background of Optimal Adaption to Vaginal Econiche

Yes, we can use it: a formal test on the accuracy of low-pass nanopore long-read sequencing for mitophylogenomics and barcoding research using the Caribbean spiny lobster Panulirus argus

A Framework for Designing Efficient Deep Learning-Based Genomic Basecallers

Complete and validated genomes from a metagenome

NanoForms: an integrated server for processing, analysis and assembly of raw sequencing data of microbial genomes, from Oxford Nanopore technology

Genome assembly of three AmazonianMorphobutterfly species reveals Z-chromosome rearrangements between closely-related species living in sympatry

Newly Established Genetic System for Functional Analysis of MetSV

International journal of molecular sciences


Collection of diverse recommendation papers

Graph Meta Network for Multi-Behavior Recommendation

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

A Framework for Recommending Accurate and Diverse Items Using Bayesian Graph Convolutional Neural Networks

Fairness among New Items in Cold Start Recommender Systems

Enhancing Recommendation Diversity using Determinantal Point Processes on Knowledge Graphs

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

Enhancing Domain-Level and User-Level Adaptivity in Diversified Recommendation

Shifting Consumption towards Diverse Content on Music Streaming Platforms

Modeling Intent Graph for Search Result Diversification

Diverse User Preference Elicitation with Multi-Armed Bandits

I Want to Break Free! Recommending Friends from Outside the Echo Chamber

Dynamic Graph Construction for Improving Diversity of Recommendation


RL STaR is a platform for creating AI for robotic applications. Researchers can share their work in the form of new robots or new tasks. Everything was made in a modular fashion to be easy to use and easy to share.

Deep Learned Path Planning via Randomized Reward-Linked-Goals and Potential Space Applications

PPMC Training Algorithm: A Robot Independent Rough Terrain Deep Learning Based Path Planner and Motion Controller

RL STaR Platform: Reinforcement Learning for Simulation based Training of Robots


This code accompanies the paper "Parameter-free Online Test-time Adaptation".

NOTE: Robust Continual Test-time Adaptation Against Temporal Correlation

Robust Test-Time Adaptation in Dynamic Scenarios

DELTA: degradation-free fully test-time adaptation

Feature Alignment and Uniformity for Test Time Adaptation

SoTTA: Robust Test-Time Adaptation on Noisy Data Streams

Test-Time Model Adaptation with Only Forward Passes

Generalized Robust Test-Time Adaptation in Continuous Dynamic Scenarios


Implementation of CenterNet and FairMOT with PyTorch Lightning

Generalized Intersection over Union: A Metric and A Loss for Bounding Box Regression

CornerNet: Detecting Objects as Paired Keypoints

Distance-IoU Loss: Faster and Better Learning for Bounding Box Regression

Generalized Focal Loss: Learning Qualified and Distributed Bounding Boxes for Dense Object Detection


Python implementation of projection losses.

SparseMAP: Differentiable Sparse Structured Inference

Learning with Fenchel-Young Losses

Learning Classifiers with Fenchel-Young Losses: Generalized Entropies, Margins, and Algorithms

Structured Prediction with Projection Oracles


Implementation for NATv2.

DARTS: Differentiable Architecture Search

Efficient Neural Architecture Search via Parameter Sharing

Towards Accurate and Compact Architectures via Neural Architecture Transformer


Learning Energy-Based Models by Diffusion Recovery Likelihood

Energy-Based Models for Anomaly Detection: A Manifold Diffusion Recovery Approach

Persistently Trained, Diffusion-assisted Energy-based Models


[ICCV 2021 Oral] Mining Latent Classes for Few-shot Segmentation

PANet: Few-Shot Image Semantic Segmentation with Prototype Alignment

Prior Guided Feature Enrichment Network for Few-Shot Segmentation

Part-aware Prototype Network for Few-shot Semantic Segmentation


Large Covid-19 CT scans dataset from the paper: https://doi.org/10.1016/j.bspc.2021.102588

A Fully Automated Deep Learning-based Network For Detecting COVID-19 from a New And Large Lung CT Scan Dataset

Applications of artificial intelligence in battling against covid-19: A literature review

Automatic detection of COVID-19 from chest CT scan and chest X-Rays images using deep learning, transfer learning and stacking

Applied intelligence (Dordrecht, Netherlands)

Efficient and visualizable convolutional neural networks for COVID-19 classification using Chest CT

Detecting COVID-19 from chest computed tomography scans using AI-driven android application

A stacked ensemble for the detection of COVID-19 with high recall and accuracy

Study of Different Deep Learning Methods for Coronavirus (COVID-19) Pandemic: Taxonomy, Survey and Insights

Prognosticating various acute covid lung disorders from COVID-19 patient using chest CT Images

Engineering applications of artificial intelligence


A series of MATLAB functions that utilizes TopoToolbox to analyze river longitudinal profiles

Short Communication: TopoToolbox 2 – MATLAB-based software for topographic analysis and modeling in Earth surface sciences

An integral approach to bedrock river profile analysis

Dynamic Reorganization of River Basins

River profile response to normal fault growth and linkage: an example from the Hellenic forearc of south-central Crete, Greece


ROS  packages for wireless signal strength based localization

Improving Gaussian Processes based mapping of wireless signals using path loss models

Data Information Fusion From Multiple Access Points for WiFi-Based Self-localization

International Conference on Robotics and Automation

Fast and robust localization using laser rangefinder and wifi data

International Conference on Multisensor Fusion and Integration for Intelligent Systems


A tool to detect integer bugs in Ethereum smart contracts (ACSAC 2018).

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

Zenodo (CERN European Organization for Nuclear Research)

Smart Contract Vulnerability Detection Technique: A Survey

An Analysis of Smart Contracts Security Threats Alongside Existing Solutions

SolidityCheck : Quickly Detecting Smart Contract Problems Through Regular Expressions

Security analysis of smart contract based rating and review systems: the perilous state of blockchain-based recommendation practices

Evolution of automated weakness detection in Ethereum bytecode: a comprehensive study

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


On Filter Generalization for Music Bandwidth Extension Using Deep Neural Networks

IEEE Journal on Selected Topics in Signal Processing

BEHM-GAN: Bandwidth Extension of Historical Music Using Generative Adversarial Networks

Phase Repair for Time-Domain Convolutional Neural Networks in Music Super-Resolution


CUDA implementation of Hierarchical Navigable Small World Graph algorithm

Efficient and Robust Approximate Nearest Neighbor Search Using Hierarchical Navigable Small World Graphs

Efficient Large-scale Approximate Nearest Neighbor Search on the GPU

Accelerating Large-Scale Graph-Based Nearest Neighbor Search on a Computational Storage Platform


Codebase for Indic-Transliteration using Seq2Seq RNN. For latest repo with Transformer-based models, check: https://github.com/AI4Bharat/IndicXlit

Offensive Language Identification in Low-resourced Code-mixed Dravidian languages using Pseudo-labeling

IIITT@Dravidian-CodeMix-FIRE2021: Transliterate or translate? Sentiment analysis of code-mixed text in Dravidian languages

Cross-lingual Offensive Language Detection: A Systematic Review of Datasets, Transfer Approaches and Challenges


The original implementation of the models and experiments of Variational Deep Semantic Hashing paper (SIGIR 2017)

Variational Deep Semantic Hashing for Text Documents

Unsupervised Neural Generative Semantic Hashing


An un-trained neural network with a potential application in accelerated MRI

Accelerated MRI with Un-trained Neural Networks

K-UNN: k-Space Interpolation With Untrained Neural Network

Can Un-trained Neural Networks Compete with Trained Neural Networks at Image Reconstruction?


An implementation of multimodal deep neural network, a new model for human breast cancer prognosis prediction.

The Application of Deep Learning in Cancer Prognosis Prediction

A Multimodal Deep Neural Network for Human Breast Cancer Prognosis Prediction by Integrating Multi-Dimensional Data

IEEE/ACM transactions on computational biology and bioinformatics

An Ensembled Framework for Human Breast Cancer Survivability Prediction Using Deep Learning


[NeurIPS 2023] OV-PARTS: Towards Open-Vocabulary Part Segmentation

Image Segmentation Using Text and Image Prompts

A Simple Baseline for Open-Vocabulary Semantic Segmentation with Pre-trained Vision-language Model

CAT-Seg: Cost Aggregation for Open-Vocabulary Semantic Segmentation


A Matlab implementation of Convolutional Sequence Embedding Recommendation Model (Caser)

Personalized Top-N Sequential Recommendation via Convolutional Sequence Embedding

Collaborative Distillation for Top-N Recommendation

DiffuRec: A Diffusion Model for Sequential Recommendation

HAM: Hybrid Associations Models for Sequential Recommendation

Position-Enhanced and Time-aware Graph Convolutional Network for Sequential Recommendations

Comprehensive Empirical Evaluation of Deep Learning Approaches for Session-based Recommendation in E-Commerce

Capturing Popularity Trends: A Simplistic Non-Personalized Approach for Enhanced Item Recommendation

End-to-end Learnable Clustering for Intent Learning in Recommendation

Influential Recommender System


The CARMENES search for exoplanets around M dwarfs. Radial velocities
  and activity indicators from cross-correlation functions with weighted binary
  masks

The CARMENES search for exoplanets around M dwarfs. Guaranteed time observations Data Release 1 (2016-2020)

HD 191939 revisited: New and refined planet mass determinations, and a new planet in the habitable zone

Two super-Earths at the edge of the habitable zone of the nearby M dwarf TOI-2095

Precise mass determination for the keystone sub-Neptune planet transiting the mid-type M dwarf G 9-40


Binaural impulse responses captured in real rooms.

Semantic Hearing: Programming Acoustic Scenes with Binaural Hearables

Proceedings of the 36th Annual ACM Symposium on User Interface Software and Technology

Look Once to Hear: Target Speech Hearing with Noisy Examples

A Fused Deep Denoising Sound Coding Strategy for Bilateral Cochlear Implants


Datasets for EMNLP-IJCNLP 2019 paper "NCLS:Neural Cross-Lingual Summarization"

WikiLingua: A New Benchmark Dataset for Cross-Lingual Abstractive Summarization

NCLS: Neural Cross-Lingual Summarization

A Variational Hierarchical Model for Neural Cross-Lingual Summarization

Multi-Task Learning for Cross-Lingual Abstractive Summarization

To Adapt or to Fine-tune: A Case Study on Abstractive Summarization


Download and manipulate some publicly available solar datasets


VizNet is a repository providing real-world datasets that enable, among other things, (re)running empirical studies with higher ecological validity

VizNet: Towards A Large-Scale Visualization Learning and Benchmarking Repository

A Survey on Semantics in Automated Data Science

A Vision for Semantically Enriched Data Science


STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)

Tumour heterogeneity and intercellular networks of nasopharyngeal carcinoma at single cell resolution

Single-cell transcriptome profiling of an adult human cell atlas of 15 major organs

Single-cell RNA sequencing reveals intrahepatic and peripheral immune characteristics related to disease phases in HBV-infected patients

Deep single-cell RNA sequencing data of individual T cells from treatment-naïve colorectal cancer patients

STARTRAC analyses of scRNAseq data from tumor models reveal T cell dynamics and therapeutic targets


Code for the collection and analysis of the MTNT dataset

MTNT: A Testbed for Machine Translation of Noisy Text

Shifts: A Dataset of Real Distributional Shift Across Multiple Large-Scale Tasks

Synthesizing Parallel Data of User-Generated Texts with Zero-Shot Neural Machine Translation

Transactions of the Association for Computational Linguistics

Learning Neural Models for Natural Language Processing in the Face of Distributional Shift


A Mathematica package for the numerical computation of quasinormal modes

Overdamped modes in Schwarzschild-de Sitter and a Mathematica package for the numerical computation of quasinormal modes

Strong cosmic censorship for a scalar field in a Born-Infeld–de Sitter black hole

Strong cosmic censorship for a scalar field in an Einstein-Maxwell-Gauss-Bonnet-de Sitter black hole

Scaling similarities and quasinormal modes of D0 black hole solutions

Strong cosmic censorship for a scalar field in a logarithmic-de Sitter black hole


Berry curvature and Chern number calculations with the output (WAVECAR) of VASP code

Strain effects on the topological and valley properties of the Janus monolayer VSiGeN4

Valley-polarized quantum anomalous Hall insulator in monolayer RuBr2

Circular Dichroism of Emergent Chiral Stacking Orders in Quasi-One-Dimensional Charge Density Waves.

A possible electronic state quasi-half-valley-metal in VGe_2P_4 monolayer

Proposal for valleytronic materials: Ferrovalley metal and valley gapless semiconductor

Electric-field induced magnetic-anisotropy transformation to achieve spontaneous valley polarization

Importance of magnetic shape anisotropy in determining magnetic and electronic properties of monolayer VSi_2P_4

Piezoelectric ferromagnetism in Janus monolayer YBrI: a first-principles prediction

Large spontaneous valley polarization and anomalous valley Hall effect
  in antiferromagnetic monolayer Fe_2CF_2


Code for "Detecting Adversarial Samples from Artifacts" (Feinman et al., 2017)

ATHENA: A Framework based on Diverse Weak Defenses for Building Adversarial Defense

Effective and Robust Detection of Adversarial Examples via Benford-Fourier Coefficients

Detecting Adversarial Data by Probing Multiple Perturbations Using Expected Perturbation Score

Adversarial Examples Detection With Bayesian Neural Network


Implementations of var-sortability, sortnregress, and chain-orientation as presented in the article "Beware of the Simulated DAG": https://arxiv.org/abs/2102.13647.

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

A Scale-Invariant Sorting Criterion to Find a Causal Order in Additive Noise Models

Stable Differentiable Causal Discovery


[ICLR'22] [KDD'22] [IJCAI'24] Implementation of "Graph Condensation for Graph Neural Networks"

Condensing Graphs via One-Step Gradient Matching

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

A Comprehensive Survey on Graph Reduction: Sparsification, Coarsening, and Condensation

GC-Bench: A Benchmark Framework for Graph Condensation with New Insights


Training MMD GANs.

Demystifying MMD GANs

HoloGAN: Unsupervised Learning of 3D Representations From Natural Images

IEEE International Conference on Computer Vision

Reusing Discriminators for Encoding: Towards Unsupervised Image-to-Image Translation

Countering Malicious DeepFakes: Survey, Battleground, and Horizon

RepMix: Representation Mixing for Robust Attribution of Synthesized Images

Exploiting Chain Rule and Bayes' Theorem to Compare Probability Distributions

AR-NeRF: Unsupervised Learning of Depth and Defocus Effects from Natural Images with Aperture Rendering Neural Radiance Fields

HoloGAN: Unsupervised learning of 3D representations from natural images


Finetuning instruct-LLaMA on german datasets.

Monolingual or Multilingual Instruction Tuning: Which Makes a Better Alpaca

Zero-shot cross-lingual transfer in instruction tuning of large language
  model

Impact of Tokenization on LLaMa Russian Adaptation


Neural Attentive Session-based Recommendation

Global Context Enhanced Graph Neural Networks for Session-based Recommendation

Deep Learning for Sequential Recommendation: Algorithms, Influential Factors, and Evaluations

Efficiently Leveraging Multi-level User Intent for Session-based Recommendation via Atten-Mixer Network

Deep Learning-Based Sequential Recommender Systems: Concepts, Algorithms, and Evaluations

Evolutionary Preference Learning via Graph Nested GRU ODE for Session-based Recommendation

Proceedings of the 31st ACM International Conference on Information & Knowledge Management

Social-aware Sparse Attention Network for Session-based Social Recommendation

Findings of the Association for Computational Linguistics: EMNLP 2022

An Academic Text Recommendation Method Based on Graph Neural Network


Repository for the AAAI 2022 paper "CEM: Commonsense-aware Empathetic Response Generation"

Harnessing the Power of Large Language Models for Empathetic Response Generation: Empirical Investigations and Improvements

CARE: Causality Reasoning for Empathetic Responses by Conditional Graph Generation

Rational Sensibility: LLM Enhanced Empathetic Response Generation Guided by Self-presentation Theory


Natural Language Processing Advancements By Deep Learning: A Survey

Quasar: Datasets for Question Answering by Search and Reading

Denoising Distantly Supervised Open-Domain Question Answering

PROCEEDINGS OF THE 56TH ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS (ACL), VOL 1

Evidence Aggregation for Answer Re-Ranking in Open-Domain Question Answering

A Survey on Machine Reading Comprehension: Tasks, Evaluation Metrics and Benchmark Datasets

Cluster-Former: Clustering-based Sparse Transformer for Long-Range Dependency Encoding

HAS-QA: Hierarchical Answer Spans Model for Open-domain Question Answering

Cross-Thought for Sentence Encoder Pre-training

Multi-Task Learning with Generative Adversarial Training for Multi-Passage Machine Reading Comprehension

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

Beyond Reptile: Meta-Learned Dot-Product Maximization between Gradients for Improved Single-Task Regularization

Findings of the Association for Computational Linguistics: EMNLP 2021


Data visualization application for data taken with qtlab or QCoDeS


CEGANN: Crystal Edge Graph Attention Neural Network for multiscale classification of materials environment

CEGAN: Crystal Edge Graph Attention Network for multiscale classification of materials environment

Structure to Property: Chemical Element Embeddings and a Deep Learning Approach for Accurate Prediction of Chemical Properties

A snapshot review on soft materials assembly design utilizing machine learning methods


NetworkX-based Python library for representing ontologies

Ontology-based information content computation

An ontology-based measure to compute semantic similarity in biomedicine

Semantic similarity estimation in the biomedical domain: An ontology-based information-theoretic perspective

A framework for unifying ontology-based semantic similarity measures: A study in the biomedical domain

Semantic similarity and machine learning with ontologies

Semantic similarity in the biomedical domain: an evaluation across knowledge sources

ontologyX: a suite of R packages for working with ontological data

Disjunctive shared information between ontology concepts: application to Gene Ontology

Leveraging synonymy and polysemy to improve semantic similarity assessments based on intrinsic information content

An intrinsic information content-based semantic similarity measure considering the disjoint common subsumers of concepts of an ontology

Journal of the Association for Information Science and Technology


A multimodal approach on emotion recognition using audio and text.

Multimodal Speech Emotion Recognition Using Audio and Text

Attention Based Fully Convolutional Network for Speech Emotion Recognition

Asia-Pacific Signal and Information Processing Association Annual Summit and Conference

Emotion Recognition from Speech


Source Codes: Rumor Detection on Social Media with Bi-Directional Graph Convolutional Networks--AAAI 2020

Towards Propagation Uncertainty: Edge-enhanced Bayesian Graph Convolutional Networks for Rumor Detection

ArCOV19-Rumors: Arabic COVID-19 Twitter Dataset for Misinformation Detection

Rumor Detection on Twitter with Claim-Guided Hierarchical Graph Attention Networks

DUCK: Rumour Detection on Social Media by Modelling User and Comment Propagation Networks

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

Examining the Limitations of Computational Rumor Detection Models Trained on Static Datasets


An image captioning model that is inspired by the Show, Attend and Tell paper (https://arxiv.org/abs/1502.03044) and the Sequence Generative Adversarial Network paper (https://arxiv.org/abs/1609.05473)

Show, Attend and Tell: Neural Image Caption Generation with Visual Attention

SeqGAN: Sequence Generative Adversarial Nets with Policy Gradient

Improving Image Captioning with Conditional Generative Adversarial Nets

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

Generating Diverse and Accurate Visual Captions by Comparative Adversarial Learning


CIRCexplorer3: A CLEAR Pipeline for Direct Comparison of Circular and Linear RNA Expression

基因组蛋白质组与生物信息学报

Disease-Associated Circular RNAs: From Biology to Computational Identification

Computational approaches for circRNAs prediction and in silico characterization

A CLEAR pipeline for direct comparison of circular and linear RNA expression


Enhancing Hi-C data resolution with deep convolutional neural network HiCPlus

SRHiC: A Deep Learning Model to Enhance the Resolution of Hi-C Data

Estimating DNA-DNA interaction frequency from Hi-C data at restriction-fragment resolution

HiCPlus: Resolution Enhancement of Hi-C interaction heatmap


MATLAB toolbox for performing "Reliable Components Analysis".

Maximally reliable spatial filtering of steady state visual evoked potentials

Natural music evokes correlated EEG responses reflecting temporal structure and beat

Inter-Subject EEG Correlation Reflects Time-Varying Engagement with Natural Music


Deep Exploration Networks - Diverse Deep Generative Models for DNA, RNA and Protein Sequences

Feedback GAN for DNA optimizes protein functions

A Deep Neural Network for Predicting and Engineering Alternative Polyadenylation

A Generative Neural Network for Maximizing Fitness and Diversity of Synthetic DNA and Protein Sequences

Deciphering regulatory DNA sequences and noncoding genetic variants using neural network models of massively parallel reporter assays


A set of functions to visualise genotypes based on a VCF

A large and diverse autosomal haplotype is associated with sex-linked colour polymorphism in the guppy

Homozygosity at its Limit: Inbreeding Depression in Wild Arabidopsis arenosa Populations

Deleterious phenotypes in wild Arabidopsis arenosa populations are common and linked to runs of homozygosity

Evolutionary genomics of socially polymorphic populations of Pogonomyrmex californicus


DimeNet and DimeNet++ models, as proposed in "Directional Message Passing for Molecular Graphs" (ICLR 2020) and "Fast and Uncertainty-Aware Directional Message Passing for Non-Equilibrium Molecules" (NeurIPS-W 2020)

Equivariant message passing for the prediction of tensorial properties and molecular spectra

Recent advances and applications of deep learning methods in materials science

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

3D Infomax improves GNNs for Molecular Property Prediction

Graph-based Molecular Representation Learning


This repository contains a Python implementation of the l1 periodogram as described in Hara, Boué, Laskar, Correia 2017, MNRAS, Vol. 464, Issue 1, p.1220-1246, with a few additions.

Six transiting planets and a chain of Laplace resonances in TOI-178

Investigating the architecture and internal structure of the TOI-561 system planets with CHEOPS, HARPS-N, and TESS

Monthly Notices of the Royal Astronomical Society

A hot mini-Neptune and a temperate, highly eccentric sub-Saturn around the bright K-dwarf TOI-2134

Monthly notices of the Royal Astronomical Society

A continuous multiple hypothesis testing framework for optimal exoplanet detection

Teegarden's Star revisited: A nearby planetary system with at least
  three planets


Official Implementation of "Natural Posterior Network: Deep Bayesian Predictive Uncertainty for Exponential Family Distributions" (ICLR, 2022)

Natural Posterior Network: Deep Bayesian Uncertainty for Exponential Family Distributions

Prior and Posterior Networks: A Survey on Evidential Deep Learning Methods For Uncertainty Estimation

Training, Architecture, and Prior for Deterministic Uncertainty Methods