Continuum Learning with GEM:  Gradient Episodic Memory

Gradient Episodic Memory for Continual Learning

End-to-End Incremental Learning

Rethinking Experience Replay: a Bag of Tricks for Continual Learning

Graph-Based Continual Learning

Distill and Replay for Continual Language Learning

International Conference on Computational Linguistics

Algorithmic insights on continual learning from fruit flies

Gated Information Bottleneck for Generalization in Sequential Environments

Continual Invariant Risk Minimization

Efficient Meta-Learning for Continual Learning with Taylor Expansion Approximation


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

Training Verifiers to Solve Math Word Problems

Holistic Evaluation of Language Models

Faithful Chain-of-Thought Reasoning

Large Language Models are Better Reasoners with Self-Verification

ToolQA: A Dataset for LLM Question Answering with External Tools

Boosting Language Models Reasoning with Chain-of-Knowledge Prompting

Automatic Generation of Socratic Subquestions for Teaching Math Word Problems

xCoT: Cross-lingual Instruction Tuning for Cross-lingual Chain-of-Thought Reasoning

Prompt Engineering a Prompt Engineer


Gated Graph Sequence Neural Networks

A Comprehensive Survey on Graph Neural Networks

IEEE transactions on neural networks and learning systems

Graph Neural Networks: A Review of Methods and Applications

Gated Graph Sequence Neural Networks

Deep Learning on Graphs: A Survey

Graph-based Semi-supervised Learning: A Comprehensive Review


Analysis Pipeline for Single Cell ATAC-seq

ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis

Comprehensive analysis of single cell ATAC-seq data with SnapATAC

Single nucleus multi-omics identifies human cortical cell regulatory genome diversity

Chromatin-accessibility estimation from single-cell ATAC-seq data with scOpen

Single cell functional genomics reveals plasticity of subcutaneous white adipose tissue (WAT) during early postnatal development

Integrative analysis of single-cell RNA-seq and ATAC-seq reveals heterogeneity of induced pluripotent stem cell-derived hepatic organoids


Unsupervised Semantic Segmentation by Distilling Feature Correspondences

Bridging the Gap to Real-World Object-Centric Learning

Self-Guided Diffusion Models

Uncovering the Inner Workings of STEGO for Safe Unsupervised Semantic Segmentation


Best CIFAR-10, CIFAR-100 results with wide-residual networks using PyTorch

Wide Residual Networks

A Simple Baseline for Bayesian Uncertainty in Deep Learning

Model compression via distillation and quantization

Loss Surfaces, Mode Connectivity, and Fast Ensembling of DNNs

Understanding Anomaly Detection with Deep Invertible Networks through Hierarchies of Distributions and Features

Fast Federated Learning by Balancing Communication Trade-Offs

Identifying Generalization Properties in Neural Networks

Score-Based Generative Classifiers

Growing Efficient Deep Networks by Structured Continuous Sparsification

Benign, Tempered, or Catastrophic: A Taxonomy of Overfitting


Code to train Importance Weighted Autoencoders on MNIST and OMNIGLOT

Stochastic Backpropagation and Approximate Inference in Deep Generative Models

Importance Weighted Autoencoders

Ladder Variational Autoencoders

Fixing a Broken ELBO

Sylvester Normalizing Flows for Variational Inference

Rényi Divergence Variational Inference

Discrete Variational Autoencoders

Dirichlet Variational Autoencoder

An information-theoretic analysis of deep latent-variable models

An Architecture for Deep, Hierarchical Generative Models


Code for ICLR 2020 paper "VL-BERT: Pre-training of Generic Visual-Linguistic Representations".

A Comprehensive Survey of AI-Generated Content (AIGC): A History of Generative AI from GAN to ChatGPT

FashionBERT: Text and Image Matching with Adaptive Loss for Cross-modal Retrieval

InterBERT: Vision-and-Language Interaction for Multi-modal Pretraining

Unsupervised Vision-and-Language Pre-training Without Parallel Images and Captions

Probing Contextual Language Models for Common Ground with Visual Representations

Probing Text Models for Common Ground with Visual Representations

Leveraging Visual Knowledge in Language Tasks: An Empirical Study on Intermediate Pre-training for Cross-modal Knowledge Transfer

ICAF: Iterative Contrastive Alignment Framework for Multimodal Abstractive Summarization


classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF

GFF Utilities: GffRead and GffCompare

The RNA landscape of the human placenta in health and disease

Systematic identification and characterization of Aedes aegypti long noncoding RNAs (lncRNAs)

Transcriptional Landscape and Regulatory Roles of Small Noncoding RNAs in the Oxidative Stress Response of the Haloarchaeon Haloferax volcanii

Spaceflight-induced alternative splicing during seedling development in Arabidopsis thaliana

Bovine Milk Extracellular Vesicles (EVs) Modification Elicits Skeletal Muscle Growth in Rats

Genome-wide identification of Aedes albopictus long noncoding RNAs and their association with dengue and zika virus infection

Identification of differentially expressed circulating exosomal lncRNAs in IgA nephropathy patients

Genome-Wide Network of lncRNA–mRNA During Ovine Oocyte Development From Germinal Vesicle to Metaphase II in vitro

EPHX2 Inhibits Colon Cancer Progression by Promoting Fatty Acid Degradation


ShortStack: Comprehensive annotation and quantification of small RNA genes

Improved Placement of Multi-mapping Small RNAs

Small RNAs from the wheat stripe rust fungus (Puccinia striiformis f.sp. tritici)

Environmental and epigenetic regulation of Rider retrotransposons in tomato

TarDB: an online database for plant miRNA targets and miRNA-triggered phased siRNAs

Integrated Analysis of Small RNA, Transcriptome and Degradome Sequencing Provides New Insights into Floral Development and Abscission in Yellow Lupine (Lupinus luteus L.)

International journal of molecular sciences

Butter: High-precision genomic alignment of small RNA-seq data

A role for MIR828 in pineapple fruit development

Bioinformatics and Machine Learning Approaches to Understand the Regulation of Mobile Genetic Elements

Evolution of microRNAs in Amoebozoa and implications for the origin of multicellularity

Differential Expression of miRNAs Involved in Response to Candidatus Liberibacter asiaticus Infection in Mexican Lime at Early and Late Stages of Huanglongbing Disease


Public Available Code and Data to Reproduce Analyses in "Air pollution and COVID-19 mortality in the United States: Strengths and limitations of an ecological regression analysis."

Exposure to air pollution and COVID-19 mortality in the United States: A nationwide cross-sectional study

medRxiv : the preprint server for health sciences

Regional Estimates of Chemical Composition of Fine Particulate Matter Using a Combined Geoscience-Statistical Method with Information from Satellites, Models, and Monitors.

Ultraviolet A radiation and COVID‐19 deaths in the USA with replication studies in England and Italy*

COVID-19 in New York state: Effects of demographics and air quality on infection and fatality

Ecological studies of COVID-19 and air pollution: How useful are they?

Environmental epidemiology (Philadelphia, Pa.)


Microbiota fingerprints lose individually identifying features over time

The Fungal Microbiome Is an Important Component of Vineyard Ecosystems and Correlates with Regional Distinctiveness of Wine

Global assembly of microbial communities

The Maternal Milk Microbiome in Mammals of Different Types and Its Potential Role in the Neonatal Gut Microbiota Composition

Animals : an open access journal from MDPI

Microbial fingerprints reveal interaction between museum objects, curators, and visitors

The association between oral and gut microbiota in male patients with alcohol dependence

Distribution characteristics and potential risks of bioaerosols during scattered farming


A repository of pretty cool datasets that I collected for network science and machine learning research.

Karate Club: An API Oriented Open-source Python Framework for Unsupervised Learning on Graphs

Twitch Gamers: a Dataset for Evaluating Proximity Preserving and Structural Role-based Node Embeddings

Collaborate to Adapt: Source-Free Graph Domain Adaptation via Bi-directional Adaptation

Graph Distillation with Eigenbasis Matching

Investigating Estimated Kolmogorov Complexity as a Means of Regularization for Link Prediction


A network intrusion detection system based on incremental statistics (AfterImage) and an ensemble of autoencoders (KitNET)

Kitsune: An Ensemble of Autoencoders for Online Network Intrusion Detection

Realtime Robust Malicious Traffic Detection via Frequency Domain Analysis

DeepAID: Interpreting and Improving Deep Learning-based Anomaly Detection in Security Applications

Conference on Computer and Communications Security

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

IEEE Transactions on Information Forensics and Security

Clustered Federated Learning Architecture for Network Anomaly Detection in Large Scale Heterogeneous IoT Networks

You do (not) belong here

Liuer Mihou: A Practical Framework for Generating and Evaluating Grey-box Adversarial Attacks against NIDS

Real-Time Anomaly Detection with Subspace Periodic Clustering Approach


Official implementation of Adabins: Depth Estimation using adaptive bins

AdaBins: Depth Estimation using Adaptive Bins

MonoScene: Monocular 3D Semantic Scene Completion

Towards Real-Time Monocular Depth Estimation for Robotics: A Survey

On the Pitfalls of Heteroscedastic Uncertainty Estimation with Probabilistic Neural Networks

RoboDepth: Robust Out-of-Distribution Depth Estimation under Corruptions


Generative Flow Networks

Flow Network based Generative Models for Non-Iterative Diverse Candidate Generation

Trajectory balance: Improved credit assignment in GFlowNets

Learning GFlowNets from partial episodes for improved convergence and stability

Better Training of GFlowNets with Local Credit and Incomplete Trajectories

Generative Augmented Flow Networks

Stochastic Generative Flow Networks

Pre-Training and Fine-Tuning Generative Flow Networks

Looking Backward: Retrospective Backward Synthesis for Goal-Conditioned
  GFlowNets

Bifurcated Generative Flow Networks


TensorNet (TensorFlow implementation)

Tensorizing Neural Networks

Speeding-up Convolutional Neural Networks Using Fine-tuned CP-Decomposition

Ultimate tensorization: compressing convolutional and FC layers alike


Automated Unittest Generation for Python

Symposium on Search Based Software Engineering

Pynguin: Automated Unit Test Generation for Python

Proceedings of the ACM/IEEE 44th International Conference on Software Engineering: Companion Proceedings

An empirical study of automated unit test generation for Python


Grounded conversational dataset for end-to-end conversational AI (official DSTC7 data)

A Knowledge-Grounded Neural Conversation Model

Dialog System Technology Challenge 7

A Survey of Document Grounded Dialogue Systems (DGDS)

Approximation of Response Knowledge Retrieval in Knowledge-grounded Dialogue Generation

Enhancing Dialogue Generation with Conversational Concept Flows

Findings of the Association for Computational Linguistics: EACL 2023

Fact-based Dialogue Generation with Convergent and Divergent Decoding

Guiding Topic Flows in the Generative Chatbot by Enhancing the ConceptNet with the Conversation Corpora

DialoGen: Generalized Long-Range Context Representation for Dialogue Systems


Reference implementation of the paper VERSE: Versatile Graph Embeddings from Similarity Measures

WEB CONFERENCE 2018: PROCEEDINGS OF THE WORLD WIDE WEB CONFERENCE (WWW2018)

GraphVite: A High-Performance CPU-GPU Hybrid System for Node Embedding

WEB CONFERENCE 2019: PROCEEDINGS OF THE WORLD WIDE WEB CONFERENCE (WWW 2019)

A Comparative Study for Unsupervised Network Representation Learning

Scalable Graph Embeddings via Sparse Transpose Proximities

FREDE: Anytime Graph Embeddings

Evaluating Node Embeddings of Complex Networks

QUINT: Node embedding using network hashing

IEEE Transactions on Knowledge and Data Engineering

Understanding Coarsening for Embedding Large-Scale Graphs

Node Embedding with Adaptive Similarities for Scalable Learning over Graphs

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


OpenStaticAnalyzer is a source code analyzer tool, which can perform deep static analysis of the source code of complex systems.

An automatically created novel bug dataset and its validation in bug prediction

A public unified bug dataset for java and its assessment regarding metrics and bug prediction

A longitudinal study of static analysis warning evolution and the effects of PMD on software quality in Apache open source projects

The SmartSHARK Ecosystem for Software Repository Mining

Building the MSR Tool Kaiaulu: Design Principles and Experiences


BWT-based index for graphs

Computational pan-genomics: status, promises and challenges

Indexing Graphs for Path Queries with Applications in Genome Research

IEEE/ACM transactions on computational biology and bioinformatics

Succinct de Bruijn Graphs

Workshop on Algorithms in Bioinformatics

Indexing Variation Graphs

Workshop on Algorithm Engineering and Experimentation

Haplotype-aware graph indexes

Genome Informatics 2016


Field delineation with Sentinel-2 data from Sentinel-Hub and a ResUnet-a architecture.


Machine/deep learning papers that address the topic of privacy in visual data.

De-identification for privacy protection in multimedia content: A survey

The Privacy-Utility Tradeoff for Remotely Teleoperated Robots

PROCEEDINGS OF THE 2015 ACM/IEEE INTERNATIONAL CONFERENCE ON HUMAN-ROBOT INTERACTION (HRI'15)

Attribute preserved face de-identification

Soft biometric privacy: Retaining biometric utility of face images while perturbing gender

2017 IEEE International Joint Conference on Biometrics (IJCB)

Privacy of Facial Soft Biometrics: Suppressing Gender But Retaining Identity

Towards privacy-preserving recognition of human activities

International Conference on Information Photonics

An overview of face de-identification in still images and videos

IEEE International Conference on Automatic Face & Gesture Recognition

Unsupervised privacy-enhancement of face representations using similarity-sensitive noise transformations

Controllable Face Privacy

PE-MIU: A Training-Free Privacy-Enhancing Face Recognition Approach Based on Minimum Information Units


Tools and code for ICESat-2 data analysis

PhotonLabeler: An Inter-Disciplinary Platform for Visual Interpretation and Labeling of ICESat-2 Geolocated Photon Data

GLObal Building heights for Urban Studies (UT-GLOBUS) for city- and street- scale urban simulations: Development and first applications

NASA ICESat-2: Space-Borne LiDAR for Geological Education and Field Mapping of Aeolian Sand Dune Environments


AIXIjs - General Reinforcement Learning in the Browser

Count-Based Exploration in Feature Space for Reinforcement Learning

Universal Reinforcement Learning Algorithms: Survey and Experiments

AIXIjs: A Software Demo for General Reinforcement Learning

Generalised Discount Functions applied to a Monte-Carlo AImu Implementation


Near infrared spectroscopy and star-formation histories of 3 <= z <= 4 quiescent galaxies

Evidence for GN-z11 as a luminous galaxy at redshift 10.957

An Extremely Massive Quiescent Galaxy at z=3.493: Evidence of Insufficiently Rapid Quenching Mechanisms in Theoretical Models

The Massive Ancient Galaxies at z > 3 NEar-infrared (MAGAZ3NE) Survey: Confirmation of Extremely Rapid Star Formation and Quenching Timescales for Massive Galaxies in the Early Universe

ZFIRE: Galaxy Cluster Kinematics, Hα Star Formation Rates, and
  Gas-Phase Metallicities of XMM-LSS J02182-05102 at z=1.6233

Spectroscopic Confirmation of a Protocluster at z = 3.37 with a High Fraction of Quiescent Galaxies

The Early Phases of Supernova 2020pni: Shock Ionization of the Nitrogen-enriched Circumstellar Material

Predicting Lyα Emission from Galaxies via Empirical Markers of
  Production and Escape in the KBSS

A possible bright ultraviolet flash from a galaxy at redshift z ≈ 11

Revisiting the gas kinematics in SSA22 Lyman-α Blob 1 with radiative transfer modelling in a multiphase, clumpy medium

Monthly notices of the Royal Astronomical Society


A robust and fast clustering method for amplicon-based studies

Swarm v3: towards tera-scale amplicon clustering

Machine learning for metagenomics: methods and tools

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

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

Revealing environmentally driven population dynamics of an Arctic diatom using a novel Microsatellite PoolSeq Barcoding approach.

Bacterial taxa predictive of hyperpigmented skins

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

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

A new sampling device for metabarcoding surveillance of port communities and detection of non-indigenous species


The Coq Effective Algebra Library [maintainers=@CohenCyril,@proux01]

QWIRE Practice: Formal Verification of Quantum Circuits in Coq

Refinements for Free!

A Refinement-Based Approach to Computational Algebra in Coq

Formalized linear algebra over Elementary Divisor Rings in Coq

Symbolic Reasoning About Quantum Circuits in Coq

A Coq Formalization of Finitely Presented Modules


Experiments for understanding disentanglement in VAE latent representations

Self-Supervised Learning Disentangled Group Representation as Feature

Tutorial on Amortized Optimization

Evaluating the Disentanglement of Deep Generative Models through Manifold Topology

Disentanglement of Correlated Factors via Hausdorff Factorized Support

Human-interpretable model explainability on high-dimensional data

NEO: Non Equilibrium Sampling on the Orbit of a Deterministic Transform

Beta-VAE Reproducibility: Challenges and Extensions

The Manifold Hypothesis for Gradient-Based Explanations

Learning Geometry-aware Representations by Sketching

Disentangling Content and Motion for Text-Based Neural Video Manipulation


bradner lab computation pipeline scripts

Response and resistance to BET bromodomain inhibitors in triple-negative breast cancer

POU2F3 is a master regulator of a tuft cell-like variant of small cell lung cancer

Recurrent somatic mutations in POLR2A define a distinct subset of meningiomas

MYB-QKI rearrangements in angiocentric glioma drive tumorigenicity through a tripartite mechanism

Transcription elongation factors represent in vivo cancer dependencies in glioblastoma

Positively selected enhancer elements endow osteosarcoma cells with metastatic competence

Small-molecule targeting of brachyury transcription factor addiction in chordoma

Histone hyperacetylation disrupts core gene regulatory architecture in rhabdomyosarcoma

Defining super-enhancer landscape in triple-negative breast cancer by multiomic profiling

Nucleoporin 153 links nuclear pore complex to chromatin architecture by mediating CTCF and cohesin binding


Python libraries for DELPH-IN

Robust Incremental Neural Semantic Graph Parsing

Robust Training under Linguistic Adversity

Conference of the European Chapter of the Association for Computational Linguistics

Neural Text Generation from Rich Semantic Representations

Functional Distributional Semantics

Towards Collaborative Neural-Symbolic Graph Semantic Parsing via Uncertainty

Findings of the Association for Computational Linguistics: ACL 2022

A Proposition-Based Abstractive Summariser

International Conference on Computational Linguistics

Semantic Composition via Probabilistic Model Theory

An HPSG-based Shared-Grammar for the Chinese Languages: ZHONG [|]

Proceedings of the Grammar Engineering Across Frameworks (GEAF) 2015 Workshop

Graph- and surface-level sentence chunking

Meeting of the Association for Computational Linguistics

Neural Maximum Subgraph Parsing for Cross-Domain Semantic Dependency Analysis

Conference on Computational Natural Language Learning


Python package for retrieving current and historical photos from Google Street View

Estimating city-level travel patterns using street imagery: A case study of using Google Street View in Britain

Using Deep Learning to Identify Utility Poles with Crossarms and Estimate Their Locations from Google Street View Images

Google Street View-Derived Neighborhood Characteristics in California Associated with Coronary Heart Disease, Hypertension, Diabetes

International journal of environmental research and public health

Health Assessment of Eucalyptus Trees Using Siamese Network from Google Street and Ground Truth Images

ELEV-VISION: Automated Lowest Floor Elevation Estimation from Segmenting Street View Images

City-Wide Perceptions of Neighbourhood Quality using Street View Images


A Quasi-DYNamic earthquake simulator

The Impact of Large Erosional Events and Transient Normal Stress Changes on the Seismicity of Faults

Scaling of Repeating Earthquakes at the Transition From Aseismic to Seismic Slip


A complete environment for Bayesian inference within R

Star-forming, rotating spheroidal galaxies in the GAMA and SAMI surveys

Monthly Notices of the Royal Astronomical Society

Deep extragalactic visible legacy survey (DEVILS): the emergence of bulges and decline of disc growth since z = 1


Code for "Heterogeneous Graph Transformer" (WWW'20), which is based on pytorch_geometric

Heterogeneous Graph Transformer

Sampling Methods for Efficient Training of Graph Convolutional Networks: A Survey

DiffMG: Differentiable Meta Graph Search for Heterogeneous Graph Neural Networks

xFraud: Explainable Fraud Transaction Detection

Differentiable Meta Multigraph Search with Partial Message Propagation on Heterogeneous Information Networks


Source code for the General Ocean Turbulence Model

Summer Oxygen Dynamics on a Southern Arabian Gulf Coral Reef

Drivers of phytoplankton responses to summer wind events in a stratified lake: A modeling study

Model-based data analysis of the effect of winter mixing on primary production in a lake under reoligotrophication


Registration of cells across sessions.

Tracking the Same Neurons across Multiple Days in Ca2+ Imaging Data

Dorsal periaqueductal gray ensembles represent approach and avoidance states

Neural signatures of auditory hypersensitivity following acoustic trauma

Optogenetic frequency scrambling of hippocampal theta oscillations dissociates working memory retrieval from hippocampal spatiotemporal codes

Accelerated social representational drift in the nucleus accumbens in a model of autism

bioRxiv : the preprint server for biology

Population dynamics underlying associative learning in the dorsal and ventral hippocampus


A framework for Medical Image Segmentation with Convolutional Neural Networks and Deep Learning

Unified Focal loss: Generalising Dice and cross entropy-based losses to handle class imbalanced medical image segmentation

MIScnn: a framework for medical image segmentation with convolutional neural networks and deep learning

Multi-Organ Segmentation Using a Low-Resource Architecture


A dependency-free cross-platform swiss army knife for PDB files.

pdb-tools: a swiss army knife for molecular structures

PDB-Tools Web: A user-friendly interface for the manipulation of PDB files

Proteins: Structure, Function, and Bioinformatics

A protocol for information-driven antibody-antigen modelling with the HADDOCK2.4 webserver

Caenorhabditis elegans MES-3 is a highly divergent ortholog of the canonical PRC2 component SUZ12

Protein-Protein Modeling Using Cryo-EM Restraints.

STRUCTURAL BIOINFORMATICS: METHODS AND PROTOCOLS


This repository contains data readers and examples for the three tracks of the Shifts Dataset and the Shifts Challenge.

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

Shifts 2.0: Extending The Dataset of Real Distributional Shifts

Structural-Based Uncertainty in Deep Learning Across Anatomical Scales: Analysis in White Matter Lesion Segmentation

Wild-Tab: A Benchmark For Out-Of-Distribution Generalization In Tabular Regression


A flexible pipeline for complete analysis of bacterial genomes

Bactopia: a flexible pipeline for complete analysis of bacterial genomes

TORMES: an automated pipeline for whole bacterial genome analysis

ASA3P: An automatic and scalable pipeline for the assembly, annotation and higher-level analysis of closely related bacterial isolates

Species-Specific Quality Control, Assembly and Contamination Detection in Microbial Isolate Sequences with AQUAMIS

MicroPIPE: validating an end-to-end workflow for high-quality complete bacterial genome construction

rMAP: the Rapid Microbial Analysis Pipeline for ESKAPE bacterial group whole-genome sequence data

Precise classification of antimicrobial resistance-associated IncP-2 megaplasmids for molecular epidemiological studies on Pseudomonas species

ProkEvo: an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses


Sparse matrix tools extending scipy.sparse, but with incompatible licenses

The NANOGrav 11 yr Data Set: Limits on Gravitational Wave Memory

HybridSVD: When Collaborative Information is Not Enough

RECSYS 2019: 13TH ACM CONFERENCE ON RECOMMENDER SYSTEMS

Approximation of Hermitian Matrices by Positive Semidefinite Matrices using Modified Cholesky Decompositions

A New Method for the Reconstruction of Strongly Lensed Galaxies with Resolved Kinematics


Metrics for verifying forecasts

Accurate medium-range global weather forecasting with 3D neural networks

FuXi: A cascade machine learning forecasting system for 15-day global weather forecast


Tools to work with Allen Inst CCF data in matlab

Distributed coding of choice, action and engagement across the mouse brain

A tool for analyzing electrode tracks from slice histology

Rapid suppression and sustained activation of distinct cortical regions for a delayed sensory-triggered motor response

Corticothalamic feedback sculpts visual spatial integration in mouse thalamus

Distance-tuned neurons drive specialized path integration calculations in medial entorhinal cortex

Distributed correlates of visually-guided behavior across the mouse brain

Organization of feedback projections to mouse primary visual cortex

Histological E-data Registration in rodent Brain Spaces

An adaptable, reusable, and light implant for chronic Neuropixels probes

Delay eyeblink conditioning performance and brain-wide c-Fos expression in male and female mice


ASCAT R package

Sarek: A portable workflow for whole-genome sequencing analysis of germline and somatic variants

Increased somatic mutation burdens in normal human cells due to defective DNA polymerases

Whole-genome sequencing reveals progressive versus stable myeloma precursor conditions as two distinct entities

An integrative analysis of the age-associated multi-omic landscape across cancers

Inherited MUTYH mutations cause elevated somatic mutation rates and distinctive mutational signatures in normal human cells

Clinical relevance of molecular characteristics in Burkitt lymphoma differs according to age

Allele-specific multi-sample copy number segmentation in ASCAT

Using whole-genome sequencing data to derive the homologous recombination deficiency scores

Comprehensive molecular analysis of immortalization hallmarks in thyroid cancer reveals new prognostic markers

Effects of psoriasis and psoralen exposure on the somatic mutation landscape of the skin


Measures and metrics for image2image tasks. PyTorch.

Raising the Cost of Malicious AI-Powered Image Editing

Enabling AI-Generated Content (AIGC) Services in Wireless Edge Networks

Diffusion-based Reinforcement Learning for Edge-enabled AI-Generated Content Services

Not Just Streaks: Towards Ground Truth for Single Image Deraining

PyTorch Image Quality: Metrics for Image Quality Assessment

Image Quality Assessment for Magnetic Resonance Imaging

ARCADE: Adversarially Regularized Convolutional Autoencoder for Network Anomaly Detection

Robust Vision-Based Cheat Detection in Competitive Gaming

Proceedings of the ACM on Computer Graphics and Interactive Techniques

Seeing without Looking: Analysis Pipeline for Child Sexual Abuse Datasets

An Optimal Transport Perspective on Unpaired Image Super-Resolution


Benchmarking analysis of data integration tools

Benchmarking atlas-level data integration in single-cell genomics

scMC learns biological variation through the alignment of multiple single-cell genomics datasets

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

Evaluating batch correction methods for image-based cell profiling


R package to simulate neutral landscape models


Tools for building power systems optimization problems

Decision making under uncertainty for deploying battery storage as a non-wire alternative in distribution networks

Scalable preconditioning of block-structured linear algebra systems using ADMM


Bergen Layered Ocean Model

Ocean biogeochemistry in the Norwegian Earth System Model version 2 (NorESM2)


A structural variation pipeline for short-read sequencing

A reference human induced pluripotent stem cell line for large-scale collaborative studies.

A harmonized public resource of deeply sequenced diverse human genomes

Genome‐Wide Analysis of Structural Variants in Parkinson Disease

Genome-wide structural variant analysis identifies risk loci for non-Alzheimer’s dementias

Detection of trait-associated structural variations using short-read sequencing


A toolbox of ocr models and algorithms based on MindSpore

An End-to-End Trainable Neural Network for Image-Based Sequence Recognition and Its Application to Scene Text Recognition

EAST: An Efficient and Accurate Scene Text Detector

Shape Robust Text Detection with Progressive Scale Expansion Network

Robust Scene Text Recognition with Automatic Rectification

Real-time Scene Text Detection with Differentiable Binarization

Read Like Humans: Autonomous, Bidirectional and Iterative Language Modeling for Scene Text Recognition

Fourier Contour Embedding for Arbitrary-Shaped Text Detection

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

RobustScanner: Dynamically Enhancing Positional Clues for Robust Text Recognition

MASTER: Multi-aspect non-local network for scene text recognition


Fast and flexible reference benchmarks

On Provable Copyright Protection for Generative Models

Feature-Learning Networks Are Consistent Across Widths At Realistic Scales

MosaicBERT: A Bidirectional Encoder Optimized for Fast Pretraining

Quantized Distributed Training of Large Models with Convergence Guarantees

German FinBERT: A German Pre-trained Language Model


The Guardian is an innovative open-source platform that streamlines the creation, management, and verification of digital environmental assets. It leverages a customizable Policy Workflow Engine and Web3 technology to ensure transparent and fraud-proof operations, making it a key tool for transforming sustainability practices and carbon markets.


Modeling Long- and Short-Term Temporal Patterns with Deep Neural Networks

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

SCINet: Time Series Modeling and Forecasting with Sample Convolution and Interaction

ETSformer: Exponential Smoothing Transformers for Time-series Forecasting

Multivariate Time Series Forecasting with Dynamic Graph Neural ODEs

Multivariate Time Series Forecasting with Transfer Entropy Graph

The Capacity and Robustness Trade-off: Revisiting the Channel Independent Strategy for Multivariate Time Series Forecasting

Frequency-domain MLPs are More Effective Learners in Time Series Forecasting

Historical Inertia: A Neglected but Powerful Baseline for Long Sequence Time-series Forecasting

Scalable Spatiotemporal Graph Neural Networks


Phased LSTM

Feature Representations for Neuromorphic Audio Spike Streams

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


The implementation of various lightweight networks by using PyTorch. such as：MobileNetV2，MobileNeXt，GhostNet，ParNet，MobileViT、AdderNet，ShuffleNetV1-V2，LCNet，ConvNeXt，etc. ⭐⭐⭐⭐⭐

A ConvNet for the 2020s

MobileViT: Light-weight, General-purpose, and Mobile-friendly Vision Transformer

PP-LCNet: A Lightweight CPU Convolutional Neural Network

HS-ResNet: Hierarchical-Split Block on Convolutional Neural Network


Library for working with 3D rotations in Matlab/Octave

Fused Angles: A Representation of Body Orientation for Balance

Fast Whole-Body Motion Control of Humanoid Robots with Inertia Constraints

Fused Angles and the Deficiencies of Euler Angles

Online Balanced Motion Generation for Humanoid Robots

Bipedal Walking with Corrective Actions in the Tilt Phase Space

Tilt Rotations and the Tilt Phase Space


Compact Data Structures Library

Log(Graph): A Near-Optimal High-Performance Graph Representation

A Framework of Dynamic Data Structures for String Processing

Grammar compressed sequences with rank/select support

String Processing and Information Retrieval

Parallel construction of wavelet trees on multicore architectures

Aggregated 2D range queries on clustered points

siEDM: An Efficient String Index and Search Algorithm for Edit Distance with Moves

Using Compressed Suffix-Arrays for a compact representation of temporal-graphs

Improved Compressed String Dictionaries

PROCEEDINGS OF THE 28TH ACM INTERNATIONAL CONFERENCE ON INFORMATION & KNOWLEDGE MANAGEMENT (CIKM '19)

A compact representation for trips over networks built on self-indexes

A Review of In-Memory Space-Efficient Data Structures for Temporal Graphs


Sequence Generation Model for Multi-label Classification (COLING 2018)

A Survey on Text Classification: From Shallow to Deep Learning

SGM: Sequence Generation Model for Multi-label Classification

Label-Specific Document Representation for Multi-Label Text Classification

Empirical Methods in Natural Language Processing

Rethinking Complex Neural Network Architectures for Document Classification

North American Chapter of the Association for Computational Linguistics

Well-calibrated confidence measures for multi-label text classification with a large number of labels

Seq2Emo for Multi-label Emotion Classification Based on Latent Variable Chains Transformation

MEXN: Multi-Stage Extraction Network for Patent Document Classification

An Empirical Study on Active Learning for Multi-label Text Classification

The Fourth Workshop on Insights from Negative Results in NLP


Implementation of caption-image retrieval from the paper "Order-Embeddings of Images and Language"

Layer Normalization

Order-Embeddings of Images and Language

Representations of language in a model of visually grounded speech signal

PROCEEDINGS OF THE 55TH ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS (ACL 2017), VOL 1

HyperLex: A Large-Scale Evaluation of Graded Lexical Entailment

Image Pivoting for Learning Multilingual Multimodal Representations


DBMDZ BERT, DistilBERT, ELECTRA, GPT-2 and ConvBERT models

Masked Language Model Scoring

German's Next Language Model

An Effective BERT-Based Pipeline for Twitter Sentiment Analysis: A Case Study in Italian

Unmasking Contextual Stereotypes: Measuring and Mitigating BERT's Gender Bias.

GottBERT: a pure German Language Model

Mitigating Language-Dependent Ethnic Bias in BERT

BERT, mBERT, or BiBERT? A Study on Contextualized Embeddings for Neural Machine Translation

Fake news detection: A survey of graph neural network methods

Czert -- Czech BERT-like Model for Language Representation

pysentimiento: A Python Toolkit for Opinion Mining and Social NLP tasks


A 3D Generative Model for Structure-Based Drug Design (NeurIPS 2021)

Pocket2Mol: Efficient Molecular Sampling Based on 3D Protein Pockets

Exploring Chemical Space with Score-based Out-of-distribution Generation

Docking-based generative approaches in the search for new drug candidates

Learning Subpocket Prototypes for Generalizable Structure-based Drug Design


Python library & examples for Masked Language Model Scoring (ACL 2020)

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

RoBERTa: A Robustly Optimized BERT Pretraining Approach

Masked Language Model Scoring

Evaluation of HTR models without Ground Truth Material

Shallow Fusion of Weighted Finite-State Transducer and Language Model for Text Normalization

Distilling Hypernymy Relations from Language Models: On the Effectiveness of Zero-Shot Taxonomy Induction

Paraphrasing Compound Nominalizations

Proceedings of the 2021 Conference on Empirical Methods in Natural Language Processing

Zero-shot hashtag segmentation for multilingual sentiment analysis

An Application of Pseudo-Log-Likelihoods to Natural Language Scoring

Unsupervised Paraphrasability Prediction for Compound Nominalizations

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


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

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

Countering Malicious DeepFakes: Survey, Battleground, and Horizon

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

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

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

An Introduction to Digital Face Manipulation

Handbook of Digital Face Manipulation and Detection

High Resolution Face Editing with Masked GAN Latent Code Optimization

Human-interpretable model explainability on high-dimensional data

Can GAN-induced Attribute Manipulations Impact Face Recognition?


code for our NAACL 2019 paper: "BERT Post-Training for Review Reading Comprehension and Aspect-based Sentiment Analysis"

Conditional Augmentation for Aspect Term Extraction via Masked Sequence-to-Sequence Generation

DomBERT: Domain-oriented Language Model for Aspect-based Sentiment Analysis

Understanding Pre-trained BERT for Aspect-based Sentiment Analysis

Constituency Lattice Encoding for Aspect Term Extraction

International Conference on Computational Linguistics

A Failure of Aspect Sentiment Classifiers and an Adaptive Re-weighting Solution


Blockchain Activities of Amrita TIFAC Cyber

Survey of consensus protocols on blockchain applications

International Conference on Advanced Computing

Redactable Blockchain using Enhanced Chameleon Hash Function

Blockchain for the Internet of Vehicles

Communications in computer and information science

Secure Digital Service Payments using Zero Knowledge Proof in Distributed Network

A Study on the Corda and Ripple Blockchain Platforms

Advances in intelligent systems and computing

Securing Firmware in Internet of Things using Blockchain

Blockchain Framework for Social Media DRM Based on Secret Sharing

Smart innovation, systems and technologies

Blockchain based Smart Contracts in Automation of Shipping Ports

PROCEEDINGS OF THE 6TH INTERNATIONAL CONFERENCE ON INVENTIVE COMPUTATION TECHNOLOGIES (ICICT 2021)

BVD - A Blockchain Based Vehicle Database System

International Symposium on Security in Computing and Communications

Fraud Detection in Medical Insurance Claim with Privacy Preserving Data Publishing in TLS-N Using Blockchain


PyTorch code to run synthetic experiments.

Invariant Risk Minimization

Environment Inference for Invariant Learning

Domain Generalization using Causal Matching

Invariant Risk Minimization Games

Invariance Principle Meets Information Bottleneck for Out-of-Distribution Generalization

Fishr: Invariant Gradient Variances for Out-of-Distribution Generalization

Learning explanations that are hard to vary

Out of Distribution Generalization in Machine Learning

Graph Rationalization with Environment-based Augmentations

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

When is invariance useful in an Out-of-Distribution Generalization problem ?


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

IEEE transactions on pattern analysis and machine intelligence

Fast and Robust Iterative Closest Point

Fast and Accurate Point Cloud Registration using Trees of Gaussian Mixtures

Shape Registration with Directional Data

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

From 2D to 3D Geodesic-based Garment Matching


Accuracy on the Line: On the Strong Correlation Between Out-of-Distribution and In-Distribution Generalization

Training Neural Networks with Fixed Sparse Masks

Tensor Programs V: Tuning Large Neural Networks via Zero-Shot Hyperparameter Transfer

Stochastic Weight Averaging in Parallel: Large-Batch Training that Generalizes Well

Controllable Dynamic Multi-Task Architectures

Co-domain Symmetry for Complex-Valued Deep Learning

Provable Robustness against a Union of L_0 Adversarial Attacks

Auto-Precision Scaling for Distributed Deep Learning

To Raise or Not To Raise: The Autonomous Learning Rate Question

Self-Compressing Neural Networks


Public Releases of SPM12 - see https://github.com/spm/spm for the Development Version

The effects of multi-echo fMRI combination and rapid T-2*-mapping on offline and real-time BOLD sensitivity

Heterogeneity in the links between sleep arousals, amyloid-β, and cognition

Characterizing spatiotemporal population receptive fields in human visual cortex with fMRI

bioRxiv : the preprint server for biology

rt-me-fMRI: A task and resting state dataset for real-time, multi-echo fMRI methods development and validation

Rethinking simultaneous suppression in visual cortex via compressive spatiotemporal population receptive fields


VorteX Clustering Environment - Java graphical tool for single-cell analysis, clustering and visualization. Latest release:

Automated mapping of phenotype space with single-cell data

Comprehensive Immune Monitoring of Clinical Trials to Advance Human Immunotherapy

Organization of the human intestine at single-cell resolution

Highly multiplexed tissue imaging using repeated oligonucleotide exchange reaction

Fetal-derived macrophages dominate in adult mammary glands

Th17 reprogramming of T cells in systemic juvenile idiopathic arthritis

Proliferation tracing with single-cell mass cytometry optimizes generation of stem cell memory-like T cells

Single-cell transcriptomic analysis of mIHC images via antigen mapping

Fetal‐derived macrophages persist and sequentially maturate in ovaries after birth in mice

Multiomic spatial landscape of innate immune cells at human central nervous system borders


AI Image SIgnal Processing and Computational Photography - Bokeh Rendering , Reversed ISP Challenge, Model-Based Image Signal Processors via Learnable Dictionaries. Official repo for NTIRE and AIM Challenges

Unprocessing Images for Learned Raw Denoising

CycleISP: Real Image Restoration via Improved Data Synthesis

Learned Smartphone ISP on Mobile NPUs with Deep Learning, Mobile AI 2021 Challenge: Report

THIRTY-SIXTH AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTY-FOURTH CONFERENCE ON INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE / THE TWELVETH SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE

Perceptual Image Enhancement for Smartphone Real-Time Applications

Reversed Image Signal Processing and RAW Reconstruction. AIM 2022 Challenge Report

Efficient Multi-Lens Bokeh Effect Rendering and Transformation

2023 IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops (CVPRW)

Deep RAW Image Super-Resolution. A NTIRE 2024 Challenge Survey

Real-Time Under-Display Cameras Image Restoration and HDR on Mobile Devices

BSRAW: Improving Blind RAW Image Super-Resolution


Deduplication based on custom inline DNA barcodes.

Early assessment of circulating tumor DNA after curative‐intent resection predicts tumor recurrence in early‐stage and locally advanced non‐small‐cell lung cancer

Analysis of solid tumor mutation profiles in liquid biopsy

Abstract 1367: Comprehensive characterization of cell-free tumor DNA in plasma and urine of patients with renal tumors

Low-Coverage Whole Genome Sequencing Using Laser Capture Microscopy with Combined Digital Droplet PCR: An Effective Tool to Study Copy Number and Kras Mutations in Early Lung Adenocarcinoma Development

International journal of molecular sciences


STREAM benchmark

High Performance Multivariate Geospatial Statistics on Manycore Systems

Secure Platform for Processing Sensitive Data on Shared HPC Systems

BIOS-Based Server Intelligent Optimization


RETFound - A foundation model for retinal image

A foundation model for generalizable disease detection from retinal images

EyeFound: A Multimodal Generalist Foundation Model for Ophthalmic Imaging

RETFound-enhanced community-based fundus disease screening: real-world evidence and decision curve analysis


Image classification for imaging flow cytometry.

CellProfiler 3.0: Next-generation image processing for biology

Label‐Free Identification of White Blood Cells Using Machine Learning

Cytometry. Part A : the journal of the International Society for Analytical Cytology

Objective assessment of stored blood quality by deep learning

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

Label‐Free Leukemia Monitoring by Computer Vision

Label-free assessment of red blood cell storage lesions by deep learning


[CVPR 2023 Highlight] LaserMix for Semi-Supervised LiDAR Semantic Segmentation

Segment Any Point Cloud Sequences by Distilling Vision Foundation Models

Robo3D: Towards Robust and Reliable 3D Perception against Corruptions

FRNet: Frustum-Range Networks for Scalable LiDAR Segmentation

Multi-Space Alignments Towards Universal LiDAR Segmentation

Annotator: A Generic Active Learning Baseline for LiDAR Semantic Segmentation

Calib3D: Calibrating Model Preferences for Reliable 3D Scene
  Understanding

Multi-Modal Data-Efficient 3D Scene Understanding for Autonomous Driving

An Empirical Study of Training State-of-the-Art LiDAR Segmentation
  Models


The repository that contains the algorithms for generating domain names, dictionaries of malicious domain names. Developed to research the possibility of applying machine learning and neural networks to detect and classify malicious domains.

Detecting DGA domains with recurrent neural networks and side information

Encrypted and Covert DNS Queries for Botnets: Challenges and Countermeasures

Inline Detection of Domain Generation Algorithms with Context-Sensitive Word Embeddings

UMUDGA: A dataset for profiling algorithmically generated domain names in botnet detection

Intercepting Hail Hydra: Real-time detection of Algorithmically Generated Domains

Journal of Network and Computer Applications

A Compression-Based Method for Detecting Anomalies in Textual Data

Exploiting Statistical and Structural Features for the Detection of Domain Generation Algorithms

Zenodo (CERN European Organization for Nuclear Research)

A compression based framework for the detection of anomalies in heterogeneous data sources


PyTorch Code for the paper "VSE++: Improving Visual-Semantic Embeddings with Hard Negatives"

Dual Encoding for Zero-Example Video Retrieval

Visually Grounded Neural Syntax Acquisition

Meeting of the Association for Computational Linguistics

LoGAN: Latent Graph Co-Attention Network for Weakly-Supervised Video Moment Retrieval

SEA: Sentence Encoder Assembly for Video Retrieval by Textual Queries

On Metric Learning for Audio-Text Cross-Modal Retrieval

Efficient Neural Architecture for Text-to-Image Synthesis

Scones: Towards Conversational Authoring of Sketches

PROCEEDINGS OF THE 25TH INTERNATIONAL CONFERENCE ON INTELLIGENT USER INTERFACES, IUI 2020

Probing Multimodal Embeddings for Linguistic Properties: the Visual-Semantic Case

International Conference on Computational Linguistics

Upgrading the Newsroom: An Automated Image Selection System for News Articles


Mem2Seq: Effectively Incorporating Knowledge Bases into End-to-End Task-Oriented Dialog Systems

A Survey of Knowledge-enhanced Text Generation

Multi-Level Memory for Task Oriented Dialogs

North American Chapter of the Association for Computational Linguistics

Scaling Multi-Domain Dialogue State Tracking via Query Reformulation

A Working Memory Model for Task-oriented Dialog Response Generation

Disentangling Language and Knowledge in Task-Oriented Dialogs

Learning to Memorize in Neural Task-Oriented Dialogue Systems


An R package to analyze, summarize, and visualize daily streamflow data

Down-delta hydraulic geometry and its application to the rock record

The hydrological benefits of restoration: A modelling study of alien tree clearing in four mountain catchments in South Africa


Benchmark datasets for WGS analysis

The use of next generation sequencing for improving food safety: Translation into practice

Benchmark datasets for phylogenomic pipeline validation, applications for foodborne pathogen surveillance

Comparison of classical multi-locus sequence typing software for next-generation sequencing data

Comparison Of Multi-locus Sequence Typing software For next generation sequencing data


The Data Cards Playbook helps dataset producers and publishers adopt a people-centered approach to transparency in dataset documentation.

Model Cards for Model Reporting

Proceedings of the Conference on Fairness, Accountability, and Transparency

Data Cards: Purposeful and Transparent Dataset Documentation for Responsible AI

Healthsheet: Development of a Transparency Artifact for Health Datasets

Leveraging LLMs for Synthesizing Training Data Across Many Languages in Multilingual Dense Retrieval


[CVPR 2020 Oral] PyTorch implementation of "Disentangling and Unifying Graph Convolutions for Skeleton-Based Action Recognition"

Accurate, Large Minibatch SGD: Training ImageNet in 1 Hour

Normalizing Flows for Human Pose Anomaly Detection

STMT: A Spatial-Temporal Mesh Transformer for MoCap-Based Action Recognition

Anonymization for Skeleton Action Recognition

InfoGCN++: Learning Representation by Predicting the Future for Online Human Skeleton-based Action Recognition

Matrix Manifold Neural Networks++

International Conference on Learning Representations


R-Based API for accessing the MSKCC Cancer Genomics Data Server (CGDS)

A Comparison of RNA-Seq Results from Paired Formalin-Fixed Paraffin-Embedded and Fresh-Frozen Glioblastoma Tissue Samples

PTEN as a Prognostic/Predictive Biomarker in Cancer: An Unfulfilled Promise?

Allele-Specific DNA Methylation and Its Interplay with Repressive Histone Marks at Promoter-Mutant TERT Genes

Epithelial-to-mesenchymal transition and its association with PD-L1 and CD8 in thyroid cancer

Study of the Female Sex Survival Advantage in Melanoma—A Focus on X-Linked Epigenetic Regulators and Immune Responses in Two Cohorts

ToPP: Tumor online prognostic analysis platform for prognostic feature selection and clinical patient subgroup selection

A reported 20-gene expression signature to predict lymph node-positive disease at radical cystectomy for muscle-invasive bladder cancer is clinically not applicable


Voice Conversion With Just Nearest Neighbors

Phoneme Hallucinator: One-shot Voice Conversion via Set Expansion

Salt: Distinguishable Speaker Anonymization Through Latent Space Transformation


PCR-GLOBWB (PCRaster Global Water Balance) is a large-scale hydrological model intended for global to regional studies and developed at the Department of Physical Geography, Utrecht University (Netherlands). Contact: Edwin Sutanudjaja (E.H.Sutanudjaja@uu.nl).

PCR-GLOBWB 2: a 5 arcmin global hydrological and water resources model

Threats of global warming to the world’s freshwater fishes

Spring enhancement and summer reduction in carbon uptake during the 2018 drought in northwestern Europe

Philosophical transactions of the Royal Society of London. Series B, Biological sciences

Current wastewater treatment targets are insufficient to protect surface water quality

FutureStreams, a global dataset of future streamflow and water temperature

Pcr-Globwb 2 Input Files Version 2017_11_Beta_1


A Deep Graph-based Toolbox for Fraud Detection

A Comprehensive Survey on Graph Anomaly Detection with Deep Learning

A Semi-supervised Graph Attentive Network for Financial Fraud Detection

Enhancing Graph Neural Network-based Fraud Detectors against Camouflaged Fraudsters

International Conference on Information and Knowledge Management

Heterogeneous Graph Neural Networks for Malicious Account Detection

GeniePath: Graph Neural Networks with Adaptive Receptive Paths

Alleviating the Inconsistency Problem of Applying Graph Neural Network to Fraud Detection

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

Spam Review Detection with Graph Convolutional Networks

PROCEEDINGS OF THE 28TH ACM INTERNATIONAL CONFERENCE ON INFORMATION & KNOWLEDGE MANAGEMENT (CIKM '19)

Rethinking Graph Neural Networks for Anomaly Detection

Improving Fraud Detection via Hierarchical Attention-based Graph Neural Network

Multitask Active Learning for Graph Anomaly Detection


Source code for generating the QGreenland package hosted at https://qgreenland.org/


docTTTTTquery document expansion model

Sparse, Dense, and Attentional Representations for Text Retrieval

Document Expansion by Query Prediction

Multi-Stage Document Ranking with BERT

Learning Passage Impacts for Inverted Indexes

A Neural Corpus Indexer for Document Retrieval

Faster Learned Sparse Retrieval with Guided Traversal

Query Reformulation using Query History for Passage Retrieval in Conversational Search

Can questions summarize a corpus? Using question generation for characterizing COVID-19 research

Generative Dense Retrieval: Memory Can Be a Burden

GLEN: Generative Retrieval via Lexical Index Learning


Portable WDL workflows for IDseq production pipelines

Discovering disease-causing pathogens in resource-scarce Southeast Asia using a global metagenomic pathogen monitoring system

Estimation of secondary household attack rates for emergent SARS-CoV-2 variants detected by genomic surveillance at a community-based testing site in San Francisco

medRxiv : the preprint server for health sciences

Building up a genomic surveillance platform for SARS-CoV-2 in the middle of a pandemic: a true North–South collaboration


interior point solver for general convex conic optimization problems

Solving Natural Conic Formulations with Hypatia.jl

Quantum key distribution rates from semidefinite programming

Performance enhancements for a generic conic interior point algorithm

Conic Optimization with Spectral Functions on Euclidean Jordan Algebras

Sum of squares generalizations for conic sets

Computing Conjugate Barrier Information for Nonsymmetric Cones

Journal of Optimization Theory and Applications


Precision HLA typing from next-generation sequencing data

Genomic Features of Response to Combination Immunotherapy in Patients with Advanced Non-Small-Cell Lung Cancer

OptiType: precision HLA typing from next-generation sequencing data

Longitudinal molecular trajectories of diffuse glioma in adults

Extensive pedigrees reveal the social organization of a Neolithic community

Genomic analyses of hair from Ludwig van Beethoven

An omic and multidimensional spatial atlas from serial biopsies of an evolving metastatic breast cancer

Computational cancer neoantigen prediction: current status and recent advances

Investigations of sequencing data and sample type on HLA class Ia typing with different computational tools

Detecting pathogenic variants in autoimmune diseases using high‐throughput sequencing

HLA alleles measured from COVID-19 patient transcriptomes reveal associations with disease prognosis in a New York cohort


Measurement methodology for advertising emissions


Analysis of deep sequencing data for rapid and intuitive interpretation of genome editing experiments

Engineered virus-like particles for efficient in vivo delivery of therapeutic proteins

PrimeDesign software for rapid and simplified design of prime editing guide RNAs

A Cas9 with PAM recognition for adenine dinucleotides

Ex vivo prime editing of patient haematopoietic stem cells rescues sickle-cell disease phenotypes after engraftment in mice

Designing and executing prime editing experiments in mammalian cells

A humanized knockin mouse model of Duchenne muscular dystrophy and its correction by CRISPR-Cas9 therapeutic gene editing

Development of a Self-Restricting CRISPR-Cas9 System to Reduce Off-Target Effects

Molecular therapy. Methods & clinical development

Correction of a urea cycle defect after ex vivo gene editing of human hepatocytes

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

Rora Regulates Neutrophil Migration and Activation in Zebrafish

PAM-Flexible Genome Editing with an Engineered Chimeric Cas9


Optimize and assist planning your garden


WFA-lib: Wavefront alignment algorithm library v2

Fast gap-affine pairwise alignment using the wavefront algorithm

WFA-GPU: Gap-affine pairwise alignment using GPUs

Scrooge: a fast and memory-frugal genomic sequence aligner for CPUs, GPUs, and ASICs

Block Aligner: an adaptive SIMD-accelerated aligner for sequences and position-specific scoring matrices


Numbers concerning COVID-19 disease cases in The Netherlands by RIVM, LCPS, NICE, ECML, and Rijksoverheid.

Addendum: The FAIR Guiding Principles for scientific data management and stewardship

Lifelines COVID-19 cohort: investigating COVID-19 infection and its health and societal impacts in a Dutch population-based cohort

Why crowding matters in the time of COVID-19 pandemic? - a lesson from the carnival effect on the 2017/2018 influenza epidemic in the Netherlands

The Lifelines COVID-19 Cohort: a questionnaire-based study to investigate COVID-19 infection and its health and societal impacts in a Dutch population-based cohort

Number of diagnoses with coronavirus disease (COVID-19) in The Netherlands


A DHT Indexer node & Peer Router

Design and evaluation of IPFS

SIGCOMM '22: PROCEEDINGS OF THE 2022 ACM SIGCOMM 2022 CONFERENCE

Passively Measuring IPFS Churn and Network Size

The Cloud Strikes Back: Investigating the Decentralization of IPFS

Proceedings of the 2023 ACM on Internet Measurement Conference

What's inside a node? Malicious IPFS nodes under the magnifying glass


ENTERPRISE (Enhanced Numerical Toolbox Enabling a Robust PulsaR Inference SuitE) is a pulsar timing analysis code, aimed at noise analysis, gravitational-wave searches, and timing model analysis.

The NANOGrav 12.5 yr Data Set: Search for an Isotropic Stochastic Gravitational-wave Background

The NANOGrav 15 yr Data Set: Evidence for a Gravitational-wave Background

The NANOGrav 15 yr Data Set: Search for Signals from New Physics

The NANOGrav 11 Year Data Set: Pulsar-timing Constraints on the Stochastic Gravitational-wave Background

Common-red-signal analysis with 24-yr high-precision timing of the European Pulsar Timing Array: inferences in the stochastic gravitational-wave background search

Monthly Notices of the Royal Astronomical Society

Searching for isotropic stochastic gravitational-wave background in the international pulsar timing array second data release

The NANOGrav 15 yr Data Set: Constraints on Supermassive Black Hole Binaries from the Gravitational-wave Background

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

Pulsar Timing Array Constraints on Primordial Black Holes with NANOGrav 11-Year Dataset

The Parkes Pulsar Timing Array project: second data release

Publications of the Astronomical Society of Australia


R package for DNA methylation analysis

Genomic basis of high-altitude adaptation in Tibetan Prunus fruit trees

Epigenetics and Early Life Stress: Experimental Brood Size Affects DNA Methylation in Great Tits (Parus major)

Mutation, methylation, and gene expression profiles in dup(1q)-positive pediatric B-cell precursor acute lymphoblastic leukemia

Reduced non-CpG methylation is a potential epigenetic target after spinal cord injury


Image reduction pipeline for the DESI Legacy Imaging Surveys, using the Tractor framework

Overview of the DESI Legacy Imaging Surveys

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

The DESI Bright Galaxy Survey: Final Target Selection, Design, and Validation

The completed SDSS-IV extended Baryon Oscillation Spectroscopic Survey: large-scale structure catalogues and measurement of the isotropic BAO between redshift 0.6 and 1.1 for the Emission Line Galaxy Sample

The Target-selection Pipeline for the Dark Energy Spectroscopic Instrument

Target Selection and Validation of DESI Emission Line Galaxies

Variations in the Width, Density, and Direction of the Palomar 5 Tidal Tails

Improving galaxy clustering measurements with deep learning: analysis of the DECaLS DR7 data

Hidden depths in the local Universe: The Stellar Stream Legacy Survey

Characterizing the target selection pipeline for the Dark Energy Spectroscopic Instrument Bright Galaxy Survey


High performance nearest neighbor data structures (KDTree and BallTree) and algorithms for Julia.

Nearest neighbour distributions: New statistical measures for cosmological clustering

Julia language in machine learning: Algorithms, applications, and open issues

Estimating Transfer Entropy in Continuous Time Between Neural Spike Trains or Other Event-Based Data

Cosmological cross-correlations and nearest neighbour distributions

Monthly notices of the Royal Astronomical Society

Predicting Spatio-temporal Time Series Using Dimension Reduced Local States

Fast and robust computation of coherent Lagrangian vortices on very large two-dimensional domains

The SMAI journal of computational mathematics


Tools for Energy Model Optimization and Analysis

Modelling to generate alternatives with an energy system optimization model

pyam: Analysis and visualisation of integrated assessment and macro-energy scenarios

Building conflict uncertainty into electricity planning: A South Sudan case study

Demand Response Analysis Framework (DRAF): An Open-Source Multi-Objective Decision Support Tool for Decarbonizing Local Multi-Energy Systems

Improving the representation of energy efficiency in an energy system optimization model

Open Source Energy System Modeling Using Break-Even Costs to Inform State-Level Policy: A North Carolina Case Study

Global sensitivity analysis to enhance the transparency and rigour of energy system optimisation modelling


Stochastic Model Predictive Control for Central HVAC Plants

Exponential Decay of Sensitivity in Graph-Structured Nonlinear Programs

A Unifying Modeling Abstraction for Infinite-Dimensional Optimization

Graph-Based Modeling and Decomposition of Energy Infrastructures

A Hierarchical Optimization Architecture for Large-Scale Power Networks

IEEE Transactions on Control of Network Systems

Scalable nonlinear programming framework for parameter estimation in dynamic biological system models

Multiscale model predictive control of battery systems for frequency regulation markets using physics-based models

On the Convergence of Overlapping Schwarz Decomposition for Nonlinear Optimal Control

A Sigmoidal Approximation for Chance-Constrained Nonlinear Programs

Mitigating investment risk using modular technologies


The mission of Project Drawdown is to help the world reach “Drawdown”— the point in the future when levels of greenhouse gases in the atmosphere stop climbing and start to steadily decline, thereby stopping catastrophic climate change — as quickly, safely, and equitably as possible.


BenchExec: A Framework for Reliable Benchmarking and Resource Measurement

Reliable benchmarking: requirements and solutions

International Journal on Software Tools for Technology Transfer (STTT)

CBMC: The C Bounded Model Checker

A Unifying View on SMT-Based Software Verification

Software Verification: 10th Comparative Evaluation (SV-COMP 2021)

Tools and Algorithms for Construction and Analysis of Systems

Benchmarking and Resource Measurement

Advances in Automatic Software Verification: SV-COMP 2020

Status Report on Software Testing: Test-Comp 2021

Second Competition on Software Testing: Test-Comp 2020

CPU Energy Meter: A Tool for Energy-Aware Algorithms Engineering

Software Verification with PDR: An Implementation of the State of the Art


Keras implementation of Representation Learning with Contrastive Predictive Coding

Value Function Spaces: Skill-Centric State Abstractions for Long-Horizon Reasoning

Predictive Coding for Boosting Deep Reinforcement Learning with Sparse Rewards


PyTorch Implementation of TranSpeech (ICLR'23): Textless NAR Speech-to-Speech Translation with Bilateral Perturbation

Direct speech-to-speech translation with discrete units

GenerSpeech: Towards Style Transfer for Generalizable Out-Of-Domain Text-to-Speech

TranSpeech: Speech-to-Speech Translation With Bilateral Perturbation

MixSpeech: Cross-Modality Self-Learning with Audio-Visual Stream Mixup for Visual Speech Translation and Recognition

DASpeech: Directed Acyclic Transformer for Fast and High-quality Speech-to-Speech Translation


An implementation of the Augmented Random Search algorithm

Simple random search provides a competitive approach to reinforcement learning

Learning Search Space Partition for Black-box Optimization using Monte Carlo Tree Search

From Complexity to Simplicity: Adaptive ES-Active Subspaces for Blackbox Optimization

An Invariant Information Geometric Method for High-Dimensional Online Optimization


Omnidirectional Scene Text Detection with Sequential-free Box Discretization (IJCAI 2019). Including competition model, online demo, etc.

Text Detection and Recognition in the Wild: A Review

Exploring the Capacity of an Orderless Box Discretization Network for Multi-orientation Scene Text Detection


Right for the Wrong Reasons: Diagnosing Syntactic Heuristics in Natural Language Inference

Towards Debiasing NLU Models from Unknown Biases


Factorization Machine models in PyTorch

Direct Feedback Alignment Scales to Modern Deep Learning Tasks and Architectures

AutoLoss: Automated Loss Function Search in Recommendations

AutoField: Automating Feature Selection in Deep Recommender Systems

User Response Prediction in Online Advertising

Memory-efficient Embedding for Recommendations

OptEmbed: Learning Optimal Embedding Table for Click-through Rate Prediction

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

AutoDenoise: Automatic Data Instance Denoising for Recommendations

Optimizing Feature Set for Click-Through Rate Prediction

MvFS: Multi-view Feature Selection for Recommender System

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

Uncovering User Interest from Biased and Noised Watch Time in Video Recommendation

Proceedings of the 17th ACM Conference on Recommender Systems


The official implementation of "Train Sparsely, Generate Densely: Memory-efficient Unsupervised Training of High-resolution Temporal GAN"

Video Diffusion Models

Align your Latents: High-Resolution Video Synthesis with Latent Diffusion Models

Temporal Generative Adversarial Nets with Singular Value Clipping

VideoGPT: Video Generation using VQ-VAE and Transformers

CogVideo: Large-scale Pretraining for Text-to-Video Generation via Transformers

A Good Image Generator Is What You Need for High-Resolution Video Synthesis

Train Sparsely, Generate Densely: Memory-Efficient Unsupervised Training of High-Resolution Temporal GAN

International Journal of Computer Vision

MAGVIT: Masked Generative Video Transformer

Diffusion Models for Video Prediction and Infilling

Empowering Dynamics-aware Text-to-Video Diffusion with Large Language Models


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

Trajectory-wise Multiple Choice Learning for Dynamics Generalization in Reinforcement Learning

Model-based Safe Deep Reinforcement Learning via a Constrained Proximal Policy Optimization Algorithm

Bellman: A Toolbox for Model-Based Reinforcement Learning in TensorFlow


Spatially Transformed Adversarial Examples with TensorFlow

Robustness of Rotation-Equivariant Networks to Adversarial Perturbations

Perturbations are not Enough: Generating Adversarial Examples with Spatial Distortions


ICML 2018 Self-Imitation Learning

Self-Imitation Learning

Learning Self-Imitating Diverse Policies

Rank the Episodes: A Simple Approach for Exploration in Procedurally-Generated Environments

Self-Imitation Learning via Generalized Lower Bound Q-learning

Simplifying Deep Reinforcement Learning via Self-Supervision

Ranking Policy Gradient

Learning Action Translator for Meta Reinforcement Learning on Sparse-Reward Tasks


Downloadable snapshots of the Chrome Top Million Websites pulled from public CrUX data in Google BigQuery.

Comparing Large-Scale Privacy and Security Notifications

Proceedings on Privacy Enhancing Technologies

Interest-disclosing Mechanisms for Advertising are Privacy-Exposing (not Preserving)


The genome polishing tool POLCA makes fast and accurate corrections in genome assemblies

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

HASLR: Fast Hybrid Assembly of Long Reads

The SAMBA tool uses long reads to improve the contiguity of genome assemblies

Comparison of De Novo Assembly Strategies for Bacterial Genomes

International journal of molecular sciences

Essential interpretations of bioinformatics in COVID-19 pandemic

First draft genome assembly of the Argane tree (Argania spinosa)

Improved Assembly of Metagenome-Assembled Genomes and Viruses in Tibetan Saline Lake Sediment by HiFi Metagenomic Sequencing

Pumping iron: A multi-omics analysis of two extremophilic algae reveals iron economy management

Bifidobacterium longumsubsp. longumBG-L47 boosts growth and activity ofLimosilactobacillus reuteriDSM 17938 and its extracellular membrane vesicles


Code for Neural Motifs: Scene Graph Parsing with Global Context (CVPR 2018)

Aligning Linguistic Words and Visual Semantic Units for Image Captioning

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

Graph Density-Aware Losses for Novel Compositions in Scene Graph Generation

Learning Visual Relation Priors for Image-Text Matching and Image Captioning with Neural Scene Graph Generators

Disentangled Motif-aware Graph Learning for Phrase Grounding

One-shot Scene Graph Generation

Generative Compositional Augmentations for Scene Graph Prediction

Addressing Class Imbalance in Scene Graph Parsing by Learning to Contrast and Score

Scene Graph Generation for Better Image Captioning?

Zero-shot Scene Graph Generation via Triplet Calibration and Reduction

ACM Transactions on Multimedia Computing, Communications, and Applications


WiC: the Word-in-Context Dataset for Evaluating Context-Sensitive Meaning Representations

Always Keep your Target in Mind: Studying Semantics and Improving Performance of Neural Lexical Substitution

International Conference on Computational Linguistics

Leveraging Contextual Embeddings and Idiom Principle for Detecting Idiomaticity in Potentially Idiomatic Expressions

Workshop on Cognitive Aspects of the Lexicon

Multi-task Learning for Universal Sentence Embeddings: A Thorough Evaluation using Transfer and Auxiliary Tasks


Curated lists of credible and non-credible online sources, available for public use

Capturing the Style of Fake News

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

The fingerprints of misinformation: how deceptive content differs from reliable sources in terms of cognitive effort and appeal to emotions

Humanities and Social Sciences Communications

Who Funds Misinformation? A Systematic Analysis of the Ad-related Profit Routines of Fake News Sites

Monant Medical Misinformation Dataset: Mapping Articles to Fact-Checked Claims

Proceedings of the 45th International ACM SIGIR Conference on Research and Development in Information Retrieval

The Rise and Fall of Fake News sites: A Traffic Analysis

Educators, Solicitors, Flamers, Motivators, Sympathizers: Characterizing Roles in Online Extremist Movements

University Community Members' Perceptions of Labels for Online Media


A certifiable defense against adversarial examples by training neural networks to be provably robust

Explaining and Harnessing Adversarial Examples

On the Effectiveness of Interval Bound Propagation for Training Verifiably Robust Models

Differentiable Abstract Interpretation for Provably Robust Neural Networks

International Conference on Machine Learning

A Provable Defense for Deep Residual Networks


An Analysis Toolkit for Natural Language Generation (Translation, Captioning, Summarization, etc.)

Google's Neural Machine Translation System: Bridging the Gap between Human and Machine Translation

BERTScore: Evaluating Text Generation with BERT

Massively Multilingual Sentence Embeddings for Zero-Shot Cross-Lingual Transfer and Beyond

FINDINGS OF THE IWSLT 2020 EVALUATION CAMPAIGN

Proceedings of the 17th International Conference on Spoken Language Translation

VizSeq: A Visual Analysis Toolkit for Text Generation Tasks

Empirical Methods in Natural Language Processing

Active Evaluation: Efficient NLG Evaluation with Few Pairwise Comparisons


Creative Commons Attribution Share Alike 4.0 International

Analysis of EBOV genome sequence from Guinea, Sierra Leone and Liberia from 2014-2016

Phylodynamic assessment of intervention strategies for the West African Ebola virus outbreak

Coupling adaptive molecular evolution to phylodynamics using fitness-dependent birth-death models

From viral evolution to spatial contagion: a biologically modulated Hawkes model

Identifying spatio-temporal dynamics of Ebola in Sierra Leone using virus genomes

Fitting stochastic epidemic models to gene genealogies using linear noise approximation


Retrofitting Word Vectors to Semantic Lexicons

Shakespearizing Modern Language Using Copy-Enriched Sequence-to-Sequence Models

Dict2vec : Learning Word Embeddings using Lexical Dictionaries

Learning Word Representations with Regularization from Prior Knowledge

Conference on Computational Natural Language Learning

Aff2Vec: Affect--Enriched Distributional Word Representations

BioVerbNet: a large semantic-syntactic classification of verbs in biomedicine.

Extrofitting: Enriching Word Representation and its Vector Space with Semantic Lexicons

Extending WordNet with Fine-Grained Collocational Information via Supervised Distributional Learning

Target Concept Guided Medical Concept Normalization in Noisy User-Generated Texts

Workshop on Knowledge Extraction and Integration for Deep Learning Architectures; Deep Learning Inside Out

On the Effective Use of Pretraining for Natural Language Inference


CrossWOZ: A Large-Scale Chinese Cross-Domain Task-Oriented Dialogue Dataset

DTCRSKG: A Deep Travel Conversational Recommender System Incorporating Knowledge Graph


Calculates the Variant Allele Fraction of variants in VCF files

Prediction of acute myeloid leukaemia risk in healthy individuals

Genomic Evolution of Breast Cancer Metastasis and Relapse

Characterizing Mutational Signatures in Human Cancer Cell Lines Reveals Episodic APOBEC Mutagenesis

Somatic mutation rates scale with lifespan across mammals

Clonal dynamics of haematopoiesis across the human lifespan

The longitudinal dynamics and natural history of clonal haematopoiesis

Life histories of myeloproliferative neoplasms inferred from phylogenies

In utero origin of myelofibrosis presenting in adult monozygotic twins

Targeting MEK in vemurafenib-resistant hairy cell leukemia

Lineage tracing of human embryonic development and foetal haematopoiesis through somatic mutations


Neural information retrieval: at the end of the early years

Bernoulli Rank-1 Bandits for Click Feedback

A Graph-Enhanced Click Model for Web Search

BubbleRank: Safe Online Learning to Re-Rank via Implicit Click Feedback

An Adversarial Imitation Click Model for Information Retrieval

Mixture-Based Correction for Position and Trust Bias in Counterfactual Learning to Rank

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

Cascading Non-Stationary Bandits: Online Learning to Rank in the Non-Stationary Cascade Model

PROCEEDINGS OF THE TWENTY-EIGHTH INTERNATIONAL JOINT CONFERENCE ON ARTIFICIAL INTELLIGENCE

De-Biased Modeling of Search Click Behavior with Reinforcement Learning

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

USimAgent: Large Language Models for Simulating Search Users

Online Learning to Rank with List-level Feedback for Image Filtering


Modules for processing extracellular electrophysiology data from Neuropixels probes

SpikeInterface, a unified framework for spike sorting

A midbrain-thalamus-cortex circuit reorganizes cortical dynamics to initiate movement

Reconciling functional differences in populations of neurons recorded with two-photon imaging and electrophysiology

High-density electrode recordings reveal strong and specific connections between retinal ganglion cells and midbrain neurons.

Zenodo (CERN European Organization for Nuclear Research)

Influence of claustrum on cortex varies by area, layer, and cell type

Distributed coding of duration in rodent prefrontal cortex during time reproduction

Differential ripple propagation along the hippocampal longitudinal axis

WaveMAP for identifying putative cell types from in vivo electrophysiology


Implementation of TabTransformer, attention network for tabular data, in Pytorch

Revisiting Deep Learning Models for Tabular Data

TabTransformer: Tabular Data Modeling Using Contextual Embeddings

SAINT: Improved Neural Networks for Tabular Data via Row Attention and Contrastive Pre-Training

TransTab: Learning Transferable Tabular Transformers Across Tables

Transfer Learning with Deep Tabular Models

MambaTab: A Plug-and-Play Model for Learning Tabular Data

UniTabE: Pretraining a Unified Tabular Encoder for Heterogeneous Tabular Data

Tabular Few-Shot Generalization Across Heterogeneous Feature Spaces


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

Analyzing Learned Molecular Representations for Property Prediction

Journal of chemical information and modeling

Low Data Drug Discovery with One-Shot Learning

GuacaMol: Benchmarking Models for De Novo Molecular Design

Optimization of Molecules via Deep Reinforcement Learning

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

PotentialNet for Molecular Property Prediction

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

Transfer Learning for Drug Discovery

SCScore: Synthetic Complexity Learned from a Reaction Corpus

Applications of Deep Learning in Molecule Generation and Molecular Property Prediction.


Bidirectional Long-Short Term Memory tagger (bi-LSTM) (in DyNet) -- hierarchical (with word and character embeddings)

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

Learning to select data for transfer learning with Bayesian Optimization

On-the-fly Operation Batching in Dynamic Computation Graphs

Distant Supervision from Disparate Sources for Low-Resource Part-of-Speech Tagging

The Lacunae of Danish Natural Language Processing

Nordic Conference of Computational Linguistics

A General-Purpose Tagger with Convolutional Neural Networks

ALL-IN-1: Short Text Classification with One Model for All Languages

Improving neural tagging with lexical information

International Workshop/Conference on Parsing Technologies

Deep Learning Transformer Architecture for Named Entity Recognition on Low Resourced Languages: State of the art results

Bornholmsk Natural Language Processing: Resources and Tools


A integration approach of the LabStreamingLayer Framework for Unity3D

EEG alpha and theta signatures of socially and non-socially cued working memory in virtual reality

Social cognitive and affective neuroscience

Effects of virtual reality-based feedback on neurofeedback training performance—A sham-controlled study

A dataset of EEG recordings from 47 participants collected during a virtual reality working memory task where attention was cued by a social avatar and non-social stick cue

A method for synchronized use of EEG and eye tracking in fully immersive VR

A Comparison of Head Movement Classification Methods


The ApolloScape Open Dataset for Autonomous Driving and its Application.

The ApolloScape Open Dataset for Autonomous Driving and Its Application

IEEE transactions on pattern analysis and machine intelligence

TrafficPredict: Trajectory Prediction for Heterogeneous Traffic-Agents

AADS: Augmented autonomous driving simulation using data-driven algorithms

A Survey on Automated Driving System Testing: Landscapes and Trends

DVI: Depth Guided Video Inpainting for Autonomous Driving

Unsupervised Learning of Depth from Monocular Videos Using 3D-2D Corresponding Constraints

CVPR 2019 WAD Challenge on Trajectory Prediction and 3D Perception


Lucid library adapted for PyTorch

Similarity and Matching of Neural Network Representations

Robust Feature-Level Adversaries are Interpretability Tools

A Unifying Principle for the Functional Organization of Visual Cortex

bioRxiv : the preprint server for biology

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

DORA: Exploring Outlier Representations in Deep Neural Networks

Visualizing the Diversity of Representations Learned by Bayesian Neural Networks

Pruning for Feature-Preserving Circuits in CNNs

Feature Accentuation: Revealing 'What' Features Respond to in Natural
  Images

Improve Convolutional Neural Network Pruning by Maximizing Filter Variety


Pedestrian simulator powered by the social force model

Core Challenges of Social Robot Navigation: A Survey

SOCIALGYM: A Framework for Benchmarking Social Robot Navigation

Human-Aware Navigation Planner for Diverse Human-Robot Contexts.

Non-Holonomic RRT & MPC: Path and Trajectory Planning for an Autonomous Cycle Rickshaw

ROS-Causal: A ROS-based Causal Analysis Framework for Human-Robot
  Interaction Applications


The Open Multilingual Wordnet

Intrinsically Interlingual: The Wn Python Library for Wordnets

Some Issues with Building a Multilingual Wordnet

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

Pinchah Kristang: A Dictionary of Kristang


Ambiguity of Uppercase vs Lowercase in RFC 2119 Key Words

Sender Policy Framework (SPF) for Authorizing Use of Domains in Email, Version 1

Domain-based Message Authentication, Reporting, and Conformance (DMARC)

The Authenticated Received Chain (ARC) Protocol


Hydrological Deep Learning

Enhancing Streamflow Forecast and Extracting Insights Using Long‐Short Term Memory Networks With Data Integration at Continental Scales

Exploring the exceptional performance of a deep learning stream temperature model and the value of streamflow data

Prediction in ungauged regions with sparse flow duration curves and input-selection ensemble modeling.

Continental-scale streamflow modeling of basins with reservoirs: Towards a coherent deep-learning-based strategy


High-quality single-file implementations of SOTA Offline and Offline-to-Online RL algorithms: AWAC, BC, CQL, DT, EDAC, IQL, SAC-N, TD3+BC, LB-SAC, SPOT, Cal-QL, ReBRAC

CORL: Research-oriented Deep Offline Reinforcement Learning Library

Diffusion Model is an Effective Planner and Data Synthesizer for Multi-Task Reinforcement Learning

Synthetic Experience Replay

ENOTO: Improving Offline-to-Online Reinforcement Learning with Q-Ensembles

Cross-Domain Policy Adaptation via Value-Guided Data Filtering

Counterfactual Conservative Q Learning for Offline Multi-agent Reinforcement Learning

When should we prefer Decision Transformers for Offline Reinforcement Learning?

Towards Robust Offline-to-Online Reinforcement Learning via Uncertainty and Smoothness

Cross-Domain Policy Adaptation by Capturing Representation Mismatch

Reinformer: Max-Return Sequence Modeling for Offline RL


cytofkit: an integrated flow/mass cytometry data analysis pipeline

High-Dimensional Single-Cell Quantitative Profiling of Skeletal Muscle Cell Population Dynamics during Regeneration

Granzyme B PET Imaging of Combined Chemotherapy and Immune Checkpoint Inhibitor Therapy in Colon Cancer

Imaging Kv1.3 Expressing Memory T Cells as a Marker of Immunotherapy Response

Inflammatory bone marrow signaling in pediatric acute myeloid leukemia distinguishes patients with poor outcomes

Using ICLite for deconvolution of bulk transcriptional data from mixed cell populations

In vivo single-cell high-dimensional mass cytometry analysis to track the interactions between Klebsiella pneumoniae and myeloid cells


nmtpy is a Python framework based on dl4mt-tutorial to experiment with Neural Machine Translation pipelines.

Using the Output Embedding to Improve Language Models

Does Multimodality Help Human and Machine for Translation and Image Captioning?

Proceedings of the First Conference on Machine Translation: Volume 2,
          Shared Task Papers

Multimodal Attention for Neural Machine Translation

NMTPY: A Flexible Toolkit for Advanced Neural Machine Translation Systems

The Prague Bulletin of Mathematical Linguistics

Factored Neural Machine Translation

Word Representations in Factored Neural Machine Translation

Proceedings of the Second Conference on Machine Translation

Neural Machine Translation by Generating Multiple Linguistic Factors

Statistical Language and Speech Processing

LIUM Machine Translation Systems for WMT17 News Translation Task


Meta-pipeline to identify transposable element insertions using next generation sequencing data

On the Population Dynamics of Junk: A Review on the Population Genomics of Transposable Elements

McClintock: An Integrated Pipeline for Detecting Transposable Element Insertions in Whole-Genome Shotgun Sequencing Data

Nuclear Ccr4-Not mediates the degradation of telomeric and transposon transcripts at chromatin in the Drosophila germline

Genomic analysis of P elements in natural populations of Drosophila melanogaster

Reproducible evaluation of transposable element detectors with McClintock 2 guides accurate inference of Ty insertion patterns in yeast


MoveTK is a library for computational movement analysis written in C++.

From A to B, randomly: a point-to-point random trajectory generator for animal movement

International Journal of Geographical Information Science

Kinematic interpolation of movement data

A framework for trajectory segmentation by stable criteria

Advances in Geographic Information Systems

Trackintel: An open-source Python library for human mobility analysis

Maximum Physically Consistent Trajectories

European Workshop on Computational Geometry


Instruction Tuning for Large Language Models: A Survey

How Far Can Camels Go? Exploring the State of Instruction Tuning on Open Resources

Camels in a Changing Climate: Enhancing LM Adaptation with Tulu 2

Fine-grained Hallucination Detection and Editing for Language Models

#InsTag: Instruction Tagging for Analyzing Supervised Fine-tuning of Large Language Models

Investigating Data Contamination for Pre-training Language Models

Airavata: Introducing Hindi Instruction-tuned LLM

WildTeaming at Scale: From In-the-Wild Jailbreaks to (Adversarially) Safer Language Models

RomanSetu: Efficiently unlocking multilingual capabilities of Large Language Models models via Romanization

WildGuard: Open One-Stop Moderation Tools for Safety Risks, Jailbreaks, and Refusals of LLMs


Multiple paper open-source codes of the Microsoft Research Asia DKI group

How Far are We from Effective Context Modeling? An Exploratory Study on Semantic Parsing in Context

Compositional Generalization by Learning Analytical Expressions

Incomplete Utterance Rewriting as Semantic Segmentation

Reasoning Like Program Executors

Awakening Latent Grounding from Pretrained Language Models for Semantic Parsing

Learning Algebraic Recombination for Compositional Generalization

Towards Robustness of Text-to-SQL Models Against Natural and Realistic Adversarial Table Perturbation

"What Do You Mean by That?" A Parser-Independent Interactive Approach for Enhancing Text-to-SQL

LogiGAN: Learning Logical Reasoning via Adversarial Pre-training

MultiSpider: Towards Benchmarking Multilingual Text-to-SQL Semantic Parsing


Lanugage of Thought (LOT) models in Python.

One model for the learning of language

Flexible Compositional Learning of Structured Visual Concepts

Compositional diversity in visual concept learning

A Large Dataset of Generalization Patterns in the Number Game


Loop Kernel Analysis and Performance Modeling Toolkit

Kerncraft: A Tool for Analytic Performance Modeling of Loop Kernels

Automatic Loop Kernel Analysis and Performance Modeling With Kerncraft

International Workshop on Performance Modeling, Benchmarking and Simulation of High Performance Computer Systems

Offsite Autotuning Approach


AMD SEV Tool

Separation of Powers in Federated Learning (Poster Paper)

Proceedings of the First Workshop on Systems Challenges in Reliable and Secure Federated Learning

Trusted Container Extensions for Container-based Confidential Computing


fastPM - A N-body Particle Mesh solver that scales

Learning to predict the cosmological structure formation

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

FastPM: a new scheme for fast simulations of dark matter and haloes

Monthly Notices of the Royal Astronomical Society

Iterative initial condition reconstruction

ICE-COLA: towards fast and accurate synthetic galaxy catalogues optimizing a quasi-N-body method

Large-scale dark matter simulations

Living Reviews in Computational Astrophysics

Cosmological reconstruction from galaxy light: neural network based light-matter connection

Journal of Cosmology and Astroparticle Physics

Halo bias in Lagrangian Space: Estimators and theoretical predictions

TARDIS. I. A Constrained Reconstruction Approach to Modeling the z ∼ 2.5 Cosmic Web Probed by Lyα Forest Tomography

A fast particle-mesh simulation of non-linear cosmological structure formation with massive neutrinos

Precision tests of CO and [CII] power spectra models against simulated intensity maps


Deep Learning for IACT Event Reconstruction

Investigating a Deep Learning Method to Analyze Images from Multiple Gamma-ray Telescopes

2019 New York Scientific Data Summit (NYSDS)

Reconstruction of IACT events using deep learning techniques with CTLearn

Reconstruction of stereoscopic CTA events using deep learning with CTLearn

IACT event analysis with the MAGIC telescopes using deep convolutional neural networks with CTLearn

Deep-learning-driven event reconstruction applied to simulated data from a single Large-Sized Telescope of CTA

The performance of the MAGIC telescopes using deep convolutional neural networks with CTLearn

A Large-Scale Study of ML-Related Python Projects


Unified Complex Network and Recurrence Analysis Toolbox

Unified functional network and nonlinear time series analysis for complex systems science: The pyunicorn package

EGU General Assembly Conference Abstracts

A climate network‐based index to discriminate different types of El Niño and La Niña

Spatial network surrogates for disentangling complex system structure from spatial embedding of nodes

Hierarchical structures in Northern Hemispheric extratropical winter ocean-atmosphere interactions

Clustered marginalization of minorities during social transitions induced by co-evolution of behaviour and network structure

Detecting dynamical anomalies in time series from different palaeoclimate proxy archives using windowed recurrence network analysis

A climate network perspective on the intertropical convergence zone

A biomarker discovery framework for childhood anxiety


LabGraph is a Python framework for rapidly prototyping experimental systems for real-time streaming applications. It is particularly well-suited to real-time neuroscience, physiology and psychology experiments.

Scalable, modular continuous wave functional near-infrared spectroscopy system (Spotlight)

User Training with Error Augmentation for Electromyogram-based Gesture Classification

Fast and Expressive Gesture Recognition using a Combination-Homomorphic Electromyogram Encoder


Nested Sampling code

Constant-pressure nested sampling with atomistic dynamics

On the performance of interatomic potential models of iron: Comparison of the phase diagrams

Neural-Network Force Field Backed Nested Sampling: Study of the Silicon p-T Phase Diagram

Nested Sampling of Materials’ Potential Energy Surfaces: Case Study of Zirconium

Carbon phase diagram with empirical and machine learned interatomic potentials


Standalone NECI codebase designed for FCIQMC and other stochastic quantum chemistry methods.

Efficient formulation of full configuration interaction quantum Monte Carlo in a spin eigenbasis via the graphical unitary group approach

Compact numerical solutions to the two-dimensional repulsive Hubbard model obtained via nonunitary similarity transformations

Density matrices in full configuration interaction quantum Monte Carlo: Excited states, transition dipole moments, and parallel distribution

Spin-Pure Stochastic-CASSCF via GUGA-FCIQMC Applied to Iron-Sulfur Clusters.

Communication: An efficient and accurate perturbative correction to initiator full configuration interaction quantum Monte Carlo.

Data Management Plans: the Importance of Data Management in the BIG-MAP Project

Efficient and stochastic multireference perturbation theory for large active spaces within a full configuration interaction quantum Monte Carlo framework

Preconditioning and Perturbative Estimators in Full Configuration Interaction Quantum Monte Carlo

Journal of chemical theory and computation

Enhancement of superexchange due to synergetic breathing and hopping in corner-sharing cuprates

Eliminating the wave-function singularity for ultracold atoms by a similarity transformation


Software package and ROS wrappers of the Aruco Augmented Reality marker detector library

CLIPort: What and Where Pathways for Robotic Manipulation

Perceiver-Actor: A Multi-Task Transformer for Robotic Manipulation

Contrastive Imitation Learning for Language-guided Multi-Task Robotic
  Manipulation


AstroDrizzle for HST images.

Discovery and properties of ultra-high redshift galaxies (9 < z < 12) in the JWST ERO SMACS 0723 Field

Panic! at the Disks: First Rest-frame Optical Observations of Galaxy Structure at z > 3 with JWST in the SMACS 0723 Field

The JWST Hubble Sequence: The Rest-Frame Optical Evolution of Galaxy Structure at $1.5 < z < 8$

NGDEEP Epoch 1: The Faint End of the Luminosity Function at z ∼ 9–12 from Ultradeep JWST Imaging

EPOCHS VI: the size and shape evolution of galaxies since z ∼ 8 with JWST Observations

Compact, bulge-dominated structures of spectroscopically confirmed quiescent galaxies at z ≈ 3

EPOCHS. II. The Ultraviolet Luminosity Function from 7.5 < z < 13.5 Using 180 arcmin2 of Deep, Blank Fields from the PEARLS Survey and Public JWST Data

A JWST investigation into the bar fraction at redshifts 1 ≤ z ≤ 3

Weak gravitational lensing shear estimation with metacalibration for the Roman High-Latitude Imaging Survey

EPOCHS Paper II: The Ultraviolet Luminosity Function from $7.5


Contrib package for Stable-Baselines3 -  Experimental reinforcement learning (RL) code

Trust Region Policy Optimization

A Distributional Perspective on Reinforcement Learning

Simple random search provides a competitive approach to reinforcement learning

A Closer Look at Invalid Action Masking in Policy Gradient Algorithms

Controlling Overestimation Bias with Truncated Mixture of Continuous Distributional Quantile Critics

Action-Evolution Petri Nets: a Framework for Modeling and Solving Dynamic Task Assignment Problems

Learning policies for resource allocation in business processes


Ensemble of HMM methods (SEPP, TIPP, UPP)

KatharoSeq Enables High-Throughput Microbiome Analysis from Low-Biomass Samples

HIPPI: highly accurate protein family classification with ensembles of HMMs

TIPP2: metagenomic taxonomic profiling using phylogenetic markers

Ultra-large alignments using Phylogeny-aware Profiles

Air versus Water Chilling of Chicken: a Pilot Study of Quality, Shelf-Life, Microbial Ecology, and Economics

HMMerge: an ensemble method for multiple sequence alignment


Short-read sequencing tools

SeqPurge: highly-sensitive adapter trimming for paired-end NGS data

Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma

Enrichment of SARM1 alleles encoding variants with constitutively hyperactive NADase in patients with ALS and other motor nerve disorders

Homozygous TBC1 domain-containing kinase (TBCK) mutation causes a novel lysosomal storage disease – a new type of neuronal ceroid lipofuscinosis (CLN15)?

A Non-interventional Clinical Trial Assessing Immune Responses After Radiofrequency Ablation of Liver Metastases From Colorectal Cancer

Expanding the phenotypic spectrum of FINCA (fibrosis, neurodegeneration, and cerebral angiomatosis) syndrome beyond infancy

Diagnostic genome sequencing improves diagnostic yield: a prospective single-centre study in 1000 patients with inherited eye diseases

Whole genome characterization of autochthonous Bos taurus brachyceros and introduced Bos indicus indicus cattle breeds in Cameroon regarding their adaptive phenotypic traits and pathogen resistance

Detection of circulating cell-free HPV DNA of 13 HPV types for patients with cervical cancer as potential biomarker to monitor therapy response and to detect relapse

Genome sequencing and transcriptome profiling in twins discordant for Mayer-Rokitansky-Küster-Hauser syndrome