[CVPR2020] BiFuse: Monocular 360 Depth Estimation via Bi-Projection Fusion

HoHoNet: 360 Indoor Holistic Understanding with Latent Horizontal Features

Monocular spherical depth estimation with explicitly connected weak layout cues

Isprs Journal of Photogrammetry and Remote Sensing

Distortion-Aware Self-Supervised 360 Depth Estimation from A
  Single Equirectangular Projection Image


MAD: The first work to explore Multi-Agent Debate with Large Language Models :D

Large Language Models are Zero-Shot Reasoners

Encouraging Divergent Thinking in Large Language Models through
  Multi-Agent Debate

Exploring Human-Like Translation Strategy with Large Language Models


Hanzi Converter for Traditional and Simplified Chinese

Beyond English-Centric Multilingual Machine Translation

m^4 Adapter: Multilingual Multi-Domain Adaptation for Machine Translation with a Meta-Adapter

Character Mapping and Ad-hoc Adaptation: Edinburgh’s IWSLT 2020 Open Domain Translation System

Proceedings of the 17th International Conference on Spoken Language Translation

2kenize: Tying Subword Sequences for Chinese Script Conversion

Hansel: A Chinese Few-Shot and Zero-Shot Entity Linking Benchmark

Kakao Enterprise’s WMT21 Machine Translation Using Terminologies Task Submission

Papago’s Submissions to the WMT21 Triangular Translation Task

ISTIC’s Triangular Machine Translation System for WMT2021


OpenPose's Unity Plugin for Unity users

OpenPose: Realtime Multi-Person 2D Pose Estimation Using Part Affinity Fields

Realtime Multi-Person 2D Pose Estimation using Part Affinity Fields

Convolutional Pose Machines

Hand Keypoint Detection in Single Images using Multiview Bootstrapping


Subgraph Neural Networks (NeurIPS 2020)

Subgraph Neural Networks

State of the Art and Potentialities of Graph-level Learning

Translating Subgraphs to Nodes Makes Simple GNNs Strong and Efficient for Subgraph Representation Learning

Position-Aware Subgraph Neural Networks with Data-Efficient Learning

Models and Benchmarks for Representation Learning of Partially Observed Subgraphs


[ICCV 2019]Aggregation via Separation: Boosting Facial Landmark Detector with Semi-Supervised Style Transition

Aggregation via Separation: Boosting Facial Landmark Detector with Semi-Supervised Style Translation

Landmark Breaker: Obstructing DeepFake By Disturbing Landmark Extraction

Toward the Creation and Obstruction of DeepFakes

Handbook of Digital Face Manipulation and Detection


Entity Alignment toolkit (EAkit), a lightweight, easy-to-use and highly extensible PyTorch implementation of many entity alignment algorithms.

Embedding Entities and Relations for Learning and Inference in Knowledge Bases

Convolutional 2D Knowledge Graph Embeddings

Learning Hierarchy-Aware Knowledge Graph Embeddings for Link Prediction

μKG: A Library for Multi-source Knowledge Graph Embeddings
  and Applications


Instant-ngp in pytorch+cuda trained with pytorch-lightning (high quality with high speed, with only few lines of legible code)

Instant neural graphics primitives with a multiresolution hash encoding

Decomposing NeRF for Editing via Feature Field Distillation

Blending-NeRF: Text-Driven Localized Editing in Neural Radiance Fields

LightSpeed: Light and Fast Neural Light Fields on Mobile Devices

Surface Normal Clustering for Implicit Representation of Manhattan Scenes


Extract individual trees from lidar point clouds

Extracting individual trees from lidar point clouds using treeseg

Realistic Forest Stand Reconstruction from Terrestrial LiDAR for Radiative Transfer Modelling

New insights into large tropical tree mass and structure from direct harvest and terrestrial lidar


Code release for "LogME: Practical Assessment of Pre-trained Models for Transfer Learning" (ICML 2021) and Ranking and Tuning Pre-trained Models: A New Paradigm for Exploiting Model Hubs (JMLR 2022)

Transferability Estimation using Bhattacharyya Class Separability

On-target Adaptation

Unleashing the power of Neural Collapse for Transferability Estimation


A curated reading list of research in Mixture-of-Experts(MoE).

Modeling Task Relationships in Multi-task Learning with Multi-gate Mixture-of-Experts

Progressive Layered Extraction (PLE): A Novel Multi-Task Learning (MTL) Model for Personalized Recommendations

RECSYS 2020: 14TH ACM CONFERENCE ON RECOMMENDER SYSTEMS

Multitask Mixture of Sequential Experts for User Activity Streams

MSSM: A Multiple-level Sparse Sharing Model for Efficient Multi-Task Learning

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

FasterMoE

Proceedings of the 27th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming

Video Recommendation with Multi-gate Mixture of Experts Soft Actor Critic

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


CvPytorch is an open source COMPUTER VISION toolbox based on PyTorch.

U-Net: Convolutional Networks for Biomedical Image Segmentation

SegNet: A Deep Convolutional Encoder-Decoder Architecture for Image Segmentation

Encoder-Decoder with Atrous Separable Convolution for Semantic Image Segmentation

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

MogaNet: Multi-order Gated Aggregation Network


Experiments and data for the paper "When and why vision-language models behave like bags-of-words, and what to do about it?" Oral @ ICLR 2023

SugarCrepe: Fixing Hackable Benchmarks for Vision-Language
  Compositionality

Interpretable Diffusion via Information Decomposition

Can Linguistic Knowledge Improve Multimodal Alignment in Vision-Language
  Pretraining?

Towards reporting bias in visual-language datasets: bimodal augmentation
  by decoupling object-attribute association


RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.

Progressive Cactus is a multiple-genome aligner for the thousand-genome era

Reconstruction of ancient homeobox gene linkages inferred from a new high-quality assembly of the Hong Kong oyster (Magallana hongkongensis) genome

Resolution of structural variation in diverse mouse genomes reveals chromatin remodeling due to transposable elements

Contingency in the convergent evolution of a regulatory network: Dosage compensation in Drosophila

Genomic and Metabolomic Analyses of the Medicinal Fungus Inonotus hispidus for Its Metabolite’s Biosynthesis and Medicinal Application

Gigantic Genomes Provide Empirical Tests of Transposable Element Dynamics Models

基因组蛋白质组与生物信息学报

SINE-Based Phylogenomics Reveal Extensive Introgression and Incomplete Lineage Sorting in Myotis

Dissecting the control of shoot development in grapevine: genetics and genomics identify potential regulators

Genome and Transcriptome Sequencing Analysis of Fusarium commune Provides Insights into the Pathogenic Mechanisms of the Lotus Rhizome Rot

Chromosome-level genome assembly of the sea cucumber Apostichopus japonicus


Code for the paper "On First-Order Meta-Learning Algorithms"

On First-Order Meta-Learning Algorithms

Provable Guarantees for Gradient-Based Meta-Learning

Meta-Learning of Neural Architectures for Few-Shot Learning

Meta-Learning Initializations for Image Segmentation

Chameleon: Learning Model Initializations Across Tasks With Different Schemas

Disentangling Task Relations for Few-shot Text Classification via Self-Supervised Hierarchical Task Clustering


Python MIDI library

Generating Music using an LSTM Network

Bach2Bach: Generating Music Using A Deep Reinforcement Learning Approach


Neural relational inference for interacting systems - pytorch

Neural Relational Inference for Interacting Systems

E(n) Equivariant Graph Neural Networks

SE(3)-Transformers: 3D Roto-Translation Equivariant Attention Networks

Filling the G_ap_s: Multivariate Time Series Imputation by Graph Neural
  Networks

SE(3) Equivariant Graph Neural Networks with Complete Local Frames

Learning Temporal Attention in Dynamic Graphs with Bilinear Interactions

Multi-agent Trajectory Prediction with Fuzzy Query Attention

Neural Relational Inference with Efficient Message Passing Mechanisms

Physics-Inspired Neural Graph ODE for Long-term Dynamical Simulation


DIA-NN - a universal automated software suite for DIA proteomics data analysis.

Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ

DIA-NN: neural networks and interference correction enable deep proteome coverage in high throughput

Data‐independent acquisition‐based SWATH ‐ MS for quantitative proteomics: a tutorial

Ultra-High-Throughput Clinical Proteomics Reveals Classifiers of COVID-19 Infection

A time-resolved proteomic and prognostic map of COVID-19

Single-Shot 10K Proteome Approach: Over 10,000 Protein Identifications by Data-Independent Acquisition-Based Single-Shot Proteomics with Ion Mobility Spectrometry

High sensitivity dia-PASEF proteomics with DIA-NN and FragPipe

High-throughput proteomic sample preparation using pressure cycling technology

Optimization of Ultrafast Proteomics Using an LC-Quadrupole-Orbitrap Mass Spectrometer with Data-Independent Acquisition

Mass Spectrometry-Based Proteomics Workflows in Cancer Research: The Relevance of Choosing the Right Steps


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

Simple and Scalable Predictive Uncertainty Estimation using Deep Ensembles

On Calibration of Modern Neural Networks

Weight Uncertainty in Neural Networks

UNITE: Uncertainty-based Health Risk Prediction Leveraging Multi-sourced Data


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

Explaining and Harnessing Adversarial Examples

Differentiable Abstract Interpretation for Provably Robust Neural Networks

International Conference on Machine Learning

A Provable Defense for Deep Residual Networks


[CVPR 2022] StyleSwin: Transformer-based GAN for High-resolution Image Generation

Generative Adversarial Networks for Image Augmentation in Agriculture: A
  Systematic Review

Exposing flaws of generative model evaluation metrics and their unfair
  treatment of diffusion models


Portable C implementation of Ed25519, a high-speed high-security public-key signature system.

CURE: A Security Architecture with CUstomizable and Resilient Enclaves

Invited Paper: Secure Boot and Remote Attestation in the Sanctum Processor

IEEE Computer Security Foundations Symposium

Citadel: Enclaves with Strong Microarchitectural Isolation and Secure
  Shared Memory on a Speculative Out-of-Order Processor


Connecting the Dots: Multivariate Time Series Forecasting with Graph Neural Networks

Graph Neural Network for Traffic Forecasting: A Survey

Spatio-Temporal Graph Neural Networks for Predictive Learning in Urban Computing: A Survey

Deciphering Spatio-Temporal Graph Forecasting: A Causal Lens and
  Treatment

Expressing Multivariate Time Series as Graphs with Time Series Attention
  Transformer


Autoregressive Entity Retrieval

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

Multilingual Denoising Pre-training for Neural Machine Translation

Autoregressive Entity Retrieval

Improving Entity Linking by Modeling Latent Relations between Mentions

CM3: A Causal Masked Multimodal Model of the Internet

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

Multilingual Autoregressive Entity Linking

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

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

Hansel: A Chinese Few-Shot and Zero-Shot Entity Linking Benchmark


CICFlowmeter-V4.0 (formerly known as ISCXFlowMeter) is an Ethernet traffic Bi-flow generator and analyzer for anomaly detection that has been used in many Cybersecurity datsets such as Android Adware-General Malware dataset (CICAAGM2017), IPS/IDS dataset (CICIDS2017), Android Malware dataset (CICAndMal2017) and Distributed Denial of Service (CICDDoS2019).

Transport and Application Layer DDoS Attacks Detection to IoT Devices by Using Machine Learning and Deep Learning Models

Towards a Universal Features Set for IoT Botnet Attacks Detection

Generalizing intrusion detection for heterogeneous networks: A
  stacked-unsupervised federated learning approach

Effective Anomaly Detection Using Deep Learning in IoT Systems

Wireless communications and mobile computing

Darknet traffic classification and adversarial attacks using machine learning

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

Investigating the Effect of Traffic Sampling on Machine Learning-Based Network Intrusion Detection Approaches

APT-Attack Detection Based on Multi-Stage Autoencoders

Investigating Generalized Performance of Data-Constrained Supervised Machine Learning Models on Novel, Related Samples in Intrusion Detection

Zero Day Threat Detection Using Graph and Flow Based Security Telemetry


This repo contains the official training and testing codes for our paper:  GridDehazeNet: Attention-Based Multi-Scale Network for Image Dehazing.

Perceptual Losses for Real-Time Style Transfer and Super-Resolution

Residual Dense Network for Image Super-Resolution


Discovering Interpretable GAN Controls [NeurIPS 2020]

GANSpace: Discovering Interpretable GAN Controls

LatentCLR: A Contrastive Learning Approach for Unsupervised Discovery of Interpretable Directions

GAN "Steerability" without optimization

Tensor Component Analysis for Interpreting the Latent Space of GANs

Surrogate Gradient Field for Latent Space Manipulation

GANravel: User-Driven Direction Disentanglement in Generative Adversarial Networks

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


Diffusion Models Beat GANs on Image Synthesis

Elucidating the Design Space of Diffusion-Based Generative Models

StyleGAN-XL: Scaling StyleGAN to Large Diverse Datasets

Label-Efficient Semantic Segmentation with Diffusion Models

Diffusion Posterior Sampling for General Noisy Inverse Problems

Fast Sampling of Diffusion Models with Exponential Integrator

Diffusion Models for Adversarial Purification

Come-Closer-Diffuse-Faster: Accelerating Conditional Diffusion Models for Inverse Problems through Stochastic Contraction

Flow Matching for Generative Modeling

Improving Diffusion Models for Inverse Problems using Manifold
  Constraints


Anomaly Detection on Dynamic (time-evolving) Graphs in Real-time and Streaming manner. Detecting intrusions (DoS and DDoS attacks), frauds, fake rating anomalies.

A Comprehensive Survey on Graph Anomaly Detection with Deep Learning

MIDAS: Microcluster-Based Detector of Anomalies in Edge Streams

Real-Time Anomaly Detection in Edge Streams


Official PyTorch implementation of TATS: A Long Video Generation Framework with Time-Agnostic VQGAN and Time-Sensitive Transformer (ECCV 2022)

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

Flexible Diffusion Modeling of Long Videos

Long Video Generation with Time-Agnostic VQGAN and Time-Sensitive Transformer

Driving into the Future: Multiview Visual Forecasting and Planning with
  World Model for Autonomous Driving

ConsistI2V: Enhancing Visual Consistency for Image-to-Video Generation


Official Code for Invertible Residual Networks

Invertible Residual Networks

iMixer: hierarchical Hopfield network implies an invertible, implicit
  and iterative MLP-Mixer


Download FASTQ files from SRA or ENA repositories.

Bactopia: a flexible pipeline for complete analysis of bacterial genomes

Plassembler: an automated bacterial plasmid assembly tool

Drug resistance prediction for Mycobacterium tuberculosis with reference graphs


ProphET, prophage estimation tool: A stand-alone prophage sequence prediction tool with self-updating reference database

Population Gene Introgression and High Genome Plasticity for the Zoonotic Pathogen Streptococcus agalactiae

ProphET, Prophage Estimation Tool: a standalone prophage sequence prediction tool with self-updating reference database


Photo-elastic Grain Solver

Photoelastic force measurements in granular materials

Enlightening force chains: a review of photoelasticimetry in granular matter

Betweenness Centrality as Predictor for Forces in Granular Packings

Protocol Dependence and State Variables in the Force-Moment Ensemble

Forecasting failure locations in 2-dimensional disordered lattices

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

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

Spongelike Rigid Structures in Frictional Granular Packings

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

Machine learning approach to force reconstruction in photoelastic materials

Force distributions in frictional granular media


SPARQList: Repository server for working SPARQL snippets

MoMI-G: modular multi-scale integrated genome graph browser

TogoGenome/TogoStanza: modularized Semantic Web genome database

SPARQList: Markdown-Based Highly Configurable REST API Hosting Server for SPARQL

Workshop on Semantic Web Applications and Tools for Life Sciences


Emissions Spatial and Temporal Allocator model


Addition to multiple object tracker "Tracktor" from "Tracking without bells and whistles" paper.

FlowNet: Learning Optical Flow with Convolutional Networks

MOT16: A Benchmark for Multi-Object Tracking

Tracking without bells and whistles

International Conference on Computer Vision


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

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

Simple Features for R: Standardized Support for Spatial Vector Data

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

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

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

CoordinateCleaner: Standardized cleaning of occurrence records from biological collection databases

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

BioModelos: A collaborative online system to map species distributions


Probabilistic Association of Transients to their Hosts (PATH)

A Measurement of Circumgalactic Gas around Nearby Galaxies Using Fast Radio Bursts


FOSSIL: A Software Tool for the Formal Synthesis of Lyapunov Functions and Barrier Certificates using Neural Networks

International Conference on Hybrid Systems: computation and control

Exact Verification of ReLU Neural Control Barrier Functions

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


Two case studies designed to study variability in optimization approach and wake models for wind farm layout optimization. In accordance with IEA Task 37.

Topology optimization of wind farm layouts

A framework for simultaneous design of wind turbines and cable layout in offshore wind

Turbine scale and siting considerations in wind plant layout optimization and implications for capacity density


Deep Reinforcement Learning for Mention-Ranking Coreference Models

Conundrums in Entity Coreference Resolution: Making Sense of the State of the Art

PROCEEDINGS OF THE 2020 CONFERENCE ON EMPIRICAL METHODS IN NATURAL LANGUAGE PROCESSING (EMNLP)

Automated Data-Driven Generation of Personalized Pedagogical Interventions in Intelligent Tutoring Systems

International journal of artificial intelligence in education

Coreference Resolution Using Neural MCDM and Fuzzy Weighting Technique

The International journal of computational intelligence systems/International journal of computational intelligence systems

Use Generalized Representations, But Do Not Forget Surface Features


Repeats

Detection, Rectification and Segmentation of Coplanar Repeated Patterns

Rectification from Radially-Distorted Scales

Minimal Solvers for Rectifying From Radially-Distorted Conjugate Translations

IEEE transactions on pattern analysis and machine intelligence

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

International journal of computer vision


Random scripts, mostly for dealing with RADseq data and DNA sequence alignments

Taxonomic Uncertainty and the Anomaly Zone: Phylogenomics Disentangle a Rapid Radiation to Resolve Contentious Species (Gila robusta Complex) in the Colorado River

Spatial population genetics in heavily managed species: Separating patterns of historical translocation from contemporary gene flow in white-tailed deer

Age structuring and spatial heterogeneity in prion protein gene (PRNP) polymorphism in white-tailed deer

FGTpartitioner: A rapid method for parsimonious delimitation of ancestry breakpoints in large genome-wide SNP datasets


Food and Agriculture Biomass Input-Output Tables


Robust Open Reading Frame prediction (ANGLE re-implementation)

Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing

Transcriptional fates of human-specific segmental duplications in brain

A highly contiguous genome assembly of Brassica nigra (BB) and revised nomenclature for the pseudochromosomes

Combining next-generation sequencing and single-molecule sequencing to explore brown plant hopper responses to contrasting genotypes of japonica rice

Full-Length Transcriptome Analyses of Genes Involved in Triterpenoid Saponin Biosynthesis of Psammosilene tunicoides Hairy Root Cultures With Exogenous Salicylic Acid

Genome Sequence and Analysis of Nicotiana benthamiana, the Model Plant for Interactions between Organisms

Full-length mRNA sequencing uncovers a widespread coupling between transcription and mRNA processing

Using long-read CAGE sequencing to profile cryptic-promoter-derived transcripts and their contribution to the immunopeptidome

Full-Length Transcriptome Analysis of the Ichthyotoxic Harmful Alga Heterosigma akashiwo (Raphidophyceae) Using Single-Molecule Real-Time Sequencing


Data analysis suite for X-ray and gamma-ray imagers, particularly for Si/CdTe Compton cameras

Detection of polarized gamma-ray emission from the Crab nebula with the Hitomi Soft Gamma-ray Detector†

Publications of the Astronomical Society of Japan

Modeling of proton-induced radioactivation background in hard X-ray telescopes: Geant4-based simulation and its demonstration by Hitomi’s measurement in a low Earth orbit

Nuclear instruments and methods in physics research. Section A, Accelerators, spectrometers, detectors and associated equipment/Nuclear instruments & methods in physics research. Section A, Accelerators, spectrometers, detectors and associated equipment

In-orbit performance and calibration of the Hard X-ray Imager onboard Hitomi (ASTRO-H)

Journal of astronomical telescopes, instruments, and systems

Study of the polarimetric performance of a Si/CdTe semiconductor Compton camera for the Hitomi satellite


k-Medoids clustering in Rust with the FasterPAM algorithm

Faster k-Medoids Clustering: Improving the PAM, CLARA, and CLARANS Algorithms

Fast and Eager k-Medoids Clustering: O(k) Runtime Improvement of the PAM, CLARA, and CLARANS Algorithms

Clustering by Direct Optimization of the Medoid Silhouette


finetune with keras

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

Distilling the Knowledge in a Neural Network

DistilBERT, a distilled version of BERT: smaller, faster, cheaper and lighter

TinyBERT: Distilling BERT for Natural Language Understanding


Short read de novo assembler using de Bruijn graphs, as published in: D.R. Zerbino and E. Birney. 2008. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Research, 18: 821-829

A New Israeli Tobamovirus Isolate Infects Tomato Plants Harboring Tm-22 Resistance Genes

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

Integrating long-range connectivity information into de Bruijn graphs

Sensitivity of Small RNA-Based Detection of Plant Viruses

De Novo Assembly and Characterization of the Invasive Northern Pacific Seastar Transcriptome

High Diversity of Novel Viruses in the Tree Pathogen Phytophthora castaneae Revealed by High-Throughput Sequencing of Total and Small RNA

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

De novo genome assembly of Bacillus altitudinis 19RS3 and Bacillus altitudinis T5S-T4, two plant growth-promoting bacteria isolated from Ilex paraguariensis St. Hil. (yerba mate)

Exon-based Phylogenomics and the Relationships of African Cichlid Fishes: Tackling the Challenges of Reconstructing Phylogenies with Repeated Rapid Radiations

Out of Sight, Out of Place: Detecting and Assessing Swapped Arguments


Human Preference Score v2: A Solid Benchmark for Evaluating Human Preferences of Text-to-Image Synthesis

Diffusion Model Alignment Using Direct Preference Optimization


Combining SchNet and SHARC: The SchNarc Machine Learning Approach for Excited-State Dynamics

The journal of physical chemistry letters

Deep learning for UV absorption spectra with SchNarc: First steps toward transferability in chemical compound space

Physically inspired deep learning of molecular excitations and photoemission spectra

High-throughput property-driven generative design of functional organic
  molecules


Collection of functions and jupyter notebooks to partially automate running a capacity test following ASTM E2848.


A spherical convolutional neural network for cosmology (TFv2).

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

DeepSphere: a graph-based spherical CNN

DeepSphere: towards an equivariant graph-based spherical CNN

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


Analysis of ensembles of metabolic network reconstructions

Inferring Metabolic Mechanisms of Interaction within a Defined Gut Microbiota.

Guiding the Refinement of Biochemical Knowledgebases with Ensembles of Metabolic Networks and Machine Learning

Medusa: Software to build and analyze ensembles of genome-scale metabolic network reconstructions

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


Positively Split Ewald

Leveraging collective effects in externally driven colloidal suspensions: experiments and simulations

Current opinion in colloid & interface science

Large Scale Brownian Dynamics of Confined Suspensions of Rigid Particles

Efficient reactive Brownian dynamics

Driven dynamics in dense suspensions of microrollers

A fluctuating boundary integral method for Brownian suspensions

A fast spectral method for electrostatics in doubly periodic slit channels

Diffusion and sedimentation in colloidal suspensions using multiparticle collision dynamics with a discrete particle model.

Hydrodynamic fluctuations in quasi-two dimensional diffusion

Computing hydrodynamic interactions in confined doubly-periodic
  geometries in linear time


A Very Low Resource Language Speech Corpus for Computational Language Documentation Experiments

Linguistic unit discovery from multi-modal inputs in unwritten languages: Summary of the "Speaking Rosetta" JSALT 2017 Workshop

Bayesian Models for Unit Discovery on a Very Low Resource Language

Enabling Interactive Transcription in an Indigenous Community


Assign taxonomic ranks based on evolutionary divergence.

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

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

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

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

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

Genomic Insights Into the Archaea Inhabiting an Australian Radioactive Legacy Site

A long-awaited taxogenomic investigation of the family Halomonadaceae

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


Code for computing tight guarantees for differential privacy

Numerical Composition of Differential Privacy

The journal of privacy and confidentiality

Computing Tight Differential Privacy Guarantees Using FFT

Tight Differential Privacy for Discrete-Valued Mechanisms and for the Subsampled Gaussian Mechanism Using FFT

Differentially private cross-silo federated learning

Differentially Private Hamiltonian Monte Carlo.


Config files for my GitHub profile.

A Practical Method for Constructing Equivariant Multilayer Perceptrons for Arbitrary Matrix Groups

Scalars are universal: Equivariant machine learning, structured like classical physics

Dimensionless machine learning: Imposing exact units equivariance

A simple equivariant machine learning method for dynamics based on
  scalars

Towards fully covariant machine learning


Zhu et al., So2Sat LCZ42: A Benchmark Dataset for Global Local Climate Zones Classification, IEEE Geoscience and Remote Sensing Magazine, in press, 2020.

TorchGeo: Deep Learning With Geospatial Data

Current trends in deep learning for Earth Observation: An open-source benchmark arena for image classification

Channel Vision Transformers: An Image Is Worth C x 16 x 16 Words


SCARV: a side-channel hardened RISC-V platform

An Instruction Set Extension to Support Software-Based Masking

IACR transactions on cryptographic hardware and embedded systems

Solver-Aided Constant-Time Circuit Verification


Evaluation code for the PhysioNet/Computing in Cardiology Challenge 2020

Classification of 12-lead ECGs: the PhysioNet/Computing in Cardiology Challenge 2020

Identification of 27 abnormalities from multi-lead ECG signals: an ensembled SE_ResNet framework with Sign Loss function

Towards Domain Generalization for ECG and EEG Classification: Algorithms and Benchmarks

A Domain Generalization Approach for Out-Of-Distribution 12-lead ECG Classification with Convolutional Neural Networks


Image segmentation of cultivated land


Generic and efficient MATLAB solver for nonsmooth optimization problems

Forward-backward quasi-Newton methods for nonsmooth optimization problems

Computational optimization and applications

Forward-Backward Envelope for the Sum of Two Nonconvex Functions: Further Properties and Nonmonotone Linesearch Algorithms

Proximal Gradient Algorithms: Applications in Signal Processing

A trust region-type normal map-based semismooth Newton method for
  nonsmooth nonconvex composite optimization

A regularized Newton method for ℓ_q-norm composite optimization
  problems


R Package to Optimize Windfarm Layouts


A compiler for quantum computers based on A* and numerical optimization.

LEAP: Scaling Numerical Optimization Based Synthesis Using an Incremental Approach

Efficient quantum gate decomposition via adaptive circuit compression

Exploring finite temperature properties of materials with quantum computers

Highly optimized quantum circuits synthesized via data-flow engines


Quasi-Newton algorithm for joint-diagonalization

Beyond Pham's algorithm for joint diagonalization

Joint Approximate Diagonalization under Orthogonality Constraints.


The UK National Grid historical demand for electricity


A Plug-and-play Lightweight tool for the Inference Optimization of Deep Neural networks

DARTS: Differentiable Architecture Search

Rethinking Differentiable Search for Mixed-Precision Neural Networks

Precision-aware Latency and Energy Balancing on Multi-Accelerator Platforms for DNN Inference

PLiNIO: A User-Friendly Library of Gradient-Based Methods for Complexity-Aware DNN Optimization

Enhancing Neural Architecture Search with Multiple Hardware Constraints for Deep Learning Model Deployment on Tiny IoT Devices

IEEE transactions on emerging topics in computing


A computational tool (H-MAGMA) for improved prediction of brain-disorder risk genes by incorporating brain chromatin interaction profiles

Multivariate analysis of 1.5 million people identifies genetic associations with traits related to self-regulation and addiction

Genome-wide association study of problematic opioid prescription use in 132,113 23andMe research participants of European ancestry

Cell type-specific and cross-population polygenic risk score analyses of MIR137 gene pathway in schizophrenia

3D genome organization links non-coding disease-associated variants to genes

Frontiers in cell and developmental biology

Connecting gene regulatory relationships to neurobiological mechanisms of brain disorders

Limited Association between Schizophrenia Genetic Risk Factors and Transcriptomic Features

Neurogenetic and multi‐omic sources of overlap among sensation seeking, alcohol consumption, and alcohol use disorder

medRxiv : the preprint server for health sciences

MULTI-ANCESTRY META-ANALYSIS OF TOBACCO USE DISORDERS PRIORITIZES NOVEL CANDIDATE RISK GENES AND REVEALS ASSOCIATIONS WITH NUMEROUS HEALTH OUTCOMES


Select primer sets for selective whole genome amplification (SWGA)

Selective Whole-Genome Amplification Is a Robust Method That Enables Scalable Whole-Genome Sequencing of Plasmodium vivax from Unprocessed Clinical Samples

swga: a primer design toolkit for selective whole genome amplification

Selective Whole-Genome Amplification as a Tool to Enrich Specimens with Low Treponema pallidum Genomic DNA Copies for Whole-Genome Sequencing


IslandPath standalone software

Improved genomic island predictions with IslandPath-DIMOB

Microbial genomic island discovery, visualization and analysis

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

International journal of molecular sciences

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


Python client library for Guppy

An improved ovine reference genome assembly to facilitate in-depth functional annotation of the sheep genome

A Highly Contiguous Genome Assembly of Arthrinium puccinoides

Complete Genome Sequence of Lactobacillus crispatus Type Strain ATCC 33820

Whole-Genome Shotgun Sequence of Bacillus mycoides Strain U53, a Psychrotolerant Bacterium Isolated from the Sakhalin Region in Russia

The highly diverse plasmid population found in Escherichia coli colonizing travellers to Laos and its role in antimicrobial resistance gene carriage


CEL-Seq2: sensitive highly-multiplexed single-cell RNA-Seq

Pluripotency and the origin of animal multicellularity

Systematic comparative analysis of single cell RNA-sequencing methods

Predicting bacterial infection outcomes using single cell RNA-sequencing analysis of human immune cells

Characterizing smoking-induced transcriptional heterogeneity in the human bronchial epithelium at single-cell resolution

WDR5, BRCA1, and BARD1 Co-regulate the DNA Damage Response and Modulate the Mesenchymal-to-Epithelial Transition during Early Reprogramming

Gene regulatory patterning codes in early cell fate specification of the C. elegans embryo

Interdependent photo- and chemosensory systems regulate larval settlement in a marine sponge


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

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

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

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

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

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

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

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


Class activation maps for your PyTorch models (CAM, Grad-CAM, Grad-CAM++, Smooth Grad-CAM++, Score-CAM, SS-CAM, IS-CAM, XGrad-CAM, Layer-CAM)

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

Learning Deep Features for Discriminative Localization

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

Workshop on Applications of Computer Vision

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

LayerCAM: Exploring Hierarchical Class Activation Maps for Localization

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

Axiom-based Grad-CAM: Towards Accurate Visualization and Explanation of CNNs

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

Image-Based Wheat Fungi Diseases Identification by Deep Learning

SS-CAM: Smoothed Score-CAM for Sharper Visual Feature Localization

IS-CAM: Integrated Score-CAM for axiomatic-based explanations


Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" provided by the platforms Migale and Genotoul

ranacapa: An R package and Shiny web app to explore environmental DNA data with exploratory statistics and interactive visualizations

Effects of Intra- and Interspecific Plant Density on Rhizosphere Bacterial Communities

Cast iron drinking water pipe biofilms support diverse microbial communities containing antibiotic resistance genes, metal resistance genes, and class 1 integrons

Environmental science. Water research & technology

Soil Fungal Communities Investigated by Metabarcoding Within Simulated Forensic Burial Contexts


A global lake level database


Thurstonian scaling for pair-wise comparison experiments

HDR image reconstruction from a single exposure using deep CNNs

International Conference on Computer Graphics and Interactive Techniques

Towards a quality metric for dense light fields

A practical guide and software for analysing pairwise comparison
  experiments

From Pairwise Comparisons and Rating to a Unified Quality Scale

Naturally glossy: Gloss perception, illumination statistics, and tone mapping

Temporal Resolution Multiplexing: Exploiting the limitations of spatio-temporal vision for more efficient VR rendering

Psychometric scaling of TID2013 dataset

ColorNet -- Estimating Colorfulness in Natural Images

Zero-Shot Super-Resolution With a Physically-Motivated Downsampling Kernel for Endomicroscopy

Comparing Direct and Indirect Methods of Audio Quality Evaluation in Virtual Reality Scenes of Varying Complexity

IEEE transactions on visualization and computer graphics


A prototype of soft contract verification for an untyped functional language

Soft contract verification

Relatively Complete Counterexamples for Higher-Order Programs

Soft contract verification for higher-order stateful programs

Symposium on Principles of Programming Languages

Higher-order symbolic execution for contract verification and refutation


Multimodal Surface Matching with Higher order Clique Reduction: Mac OS and Linux binaries

The relationship between spatial configuration and functional connectivity of brain regions

Cortical morphology at birth reflects spatiotemporal patterns of gene expression in the fetal human brain

Constructing and evaluating a cortical surface atlas and analyzing cortical sex differences in young Chinese adults

Aligning individual brains with Fused Unbalanced Gromov-Wasserstein

A Deep-Discrete Learning Framework for Spherical Surface Registration

Functional connectome through the human life span

bioRxiv : the preprint server for biology

SUGAR: Spherical Ultrafast Graph Attention Framework for Cortical
  Surface Registration


A knowledge graph and a set of tools for drug repurposing

Strategies for Pre-training Graph Neural Networks

Building a knowledge graph to enable precision medicine

SumGNN: multi-typed drug interaction prediction via efficient knowledge graph summarization

KG-COVID-19: A Framework to Produce Customized Knowledge Graphs for COVID-19 Response

A Review of Biomedical Datasets Relating to Drug Discovery: A Knowledge Graph Perspective

Few-shot link prediction via graph neural networks for Covid-19 drug-repurposing

Understanding the Performance of Knowledge Graph Embeddings in Drug Discovery

Probabilistic Entity Representation Model for Reasoning over Knowledge Graphs

SMORE: Knowledge Graph Completion and Multi-hop Reasoning in Massive Knowledge Graphs

A computational approach to drug repurposing using graph neural networks


Pytorch implementation of paper "HiDDeN: Hiding Data With Deep Networks" by Jiren Zhu, Russell Kaplan, Justin Johnson, and Li Fei-Fei

HiDDeN: Hiding Data With Deep Networks

Image data hiding with multi-scale autoencoder network

Image Data Hiding in Neural Compressed Latent Representations


This is a plant/farming simulator based on Finite Element Method, which targets crops in fields. This software provides multi-physical simulations of agriculture for canopies, plants, and organs for farmers, breeders, and agronomists. Please try and give us feedback. This github-page is a mirror of the following gitlab-page.


Regional Earth System Model

Modelling the Caspian Sea and its catchment area using a coupled regional atmosphere-ocean model (RegCM4-ROMS): model design and preliminary results

Validation of newly designed regional earth system model (RegESM) for Mediterranean Basin

Toward modular in situ visualization in Earth system models: the regional modeling system RegESM 1.1

Towards in-situ visualization integrated earth system models: RegESM 1.1 regional modelling system

A new approach for in situ analysis in fully coupled earth system models

Proceedings of the Workshop on In Situ Infrastructures for Enabling Extreme-Scale Analysis and Visualization


Toolbox for HODLR and HSS matrices in MATLAB

Solving rank structured Sylvester and Lyapunov equations

hm-toolbox: Matlab software for HODLR and HSS matrices

Numerical methods for large-scale Lyapunov equations with symmetric banded data

Hierarchical adaptive low-rank format with applications to discretized
  PDEs

Low-rank updates and divide-and-conquer methods for quadratic matrix equations


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

Efficient Classical Computation of Quantum Mean Values for Shallow QAOA
  Circuits


This toolbox includes MATLAB scripts to perform a "spin test" of anatomical correspondence between cortical surface maps, as presented in "On testing for spatial correspondence between maps of human brain structure and function," Alexander-Bloch et al., NeuroImage, 2018.

Distributed harmonic patterns of structure-function dependence orchestrate human consciousness

Dissociable multi-scale patterns of development in personalized brain networks

Functional harmonics reveal multi-dimensional basis functions underlying cortical organization

Women’s neuroplasticity during gestation, childbirth and postpartum

Variation in subcortical anatomy: relating interspecies differences, heritability, and brain-behavior relationships


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

Comparing Transfer and Meta Learning Approaches on a Unified Few-Shot
  Classification Benchmark

An Evolutionary Approach to Dynamic Introduction of Tasks in Large-scale
  Multitask Learning Systems

A Continual Development Methodology for Large-scale Multitask Dynamic ML
  Systems

A Multiagent Framework for the Asynchronous and Collaborative Extension
  of Multitask ML Systems


Norwegian Review Corpus

skweak: Weak Supervision Made Easy for NLP

Meeting of the Association for Computational Linguistics

NoReC: The Norwegian Review Corpus

LREC - NoReC: The Norwegian Review Corpus


Helper scripts for TADPOLE Challenge 2017: http://tadpole.grand-challenge.org

TADPOLE Challenge: Prediction of Longitudinal Evolution in Alzheimer's Disease

TADPOLE Challenge: Accurate Alzheimer's Disease Prediction Through Crowdsourced Forecasting of Future Data

PREDICTIVE INTELLIGENCE IN MEDICINE (PRIME 2019)

The Alzheimer's Disease Prediction Of Longitudinal Evolution (TADPOLE) Challenge: Results after 1 Year Follow-up

The journal of machine learning for biomedical imaging

A Probabilistic Disease Progression Model for Predicting Future Clinical Outcome

Modelling the Neuroanatomical Progression of Alzheimer's Disease and Posterior Cortical Atrophy


Exploiting Explainable Metrics for Augmented SGD [CVPR2022]

Adam: A Method for Stochastic Optimization

AdaS: Adaptive Scheduling of Stochastic Gradients

CONet: Channel Optimization for Convolutional Neural Networks


General tools for genomic analyses.

Recombination rate variation shapes barriers to introgression across butterfly genomes

Widespread selection and gene flow shape the genomic landscape during a radiation of monkeyflowers

No evidence for maintenance of a sympatric Heliconius species barrier by chromosomal inversions

Pig genome functional annotation enhances the biological interpretation of complex traits and human disease

Adaptive Introgression across Semipermeable Species Boundaries between Local Helicoverpa zea and Invasive Helicoverpa armigera Moths

Whole-chromosome hitchhiking driven by a male-killing endosymbiont

Behavior-dependent cis regulation reveals genes and pathways associated with bower building in cichlid fishes

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

Bartter syndrome revealed at adult age by recurrent nephrolithiasis, associated with hypertension and metabolic syndrome.

Chromosome Fusion Affects Genetic Diversity and Evolutionary Turnover of Functional Loci but Consistently Depends on Chromosome Size

A high-quality, chromosome-level genome assembly of the Black Soldier Fly (Hermetia illucens L.)


Additional material for the paper "MoralStrength: Exploiting a Moral Lexicon and Embedding Similarity for Moral Foundations Prediction"

MoralStrength: Exploiting a moral lexicon and embedding similarity for moral foundations prediction

The Moral Debater: A Study on the Computational Generation of Morally Framed Arguments

From Stance to Concern: Adaptation of Propositional Analysis to New Tasks and Domains

Investigating Moral Foundations from Web Trending Topics


The official implementation for Pseudo Numerical Methods for Diffusion Models on Manifolds (PNDM, PLMS | ICLR2022)

Denoising Diffusion Implicit Models

Score-Based Generative Modeling through Stochastic Differential Equations

Improved Denoising Diffusion Probabilistic Models

Fast Sampling of Diffusion Models with Exponential Integrator

Towards the Detection of Diffusion Model Deepfakes

DIRE for Diffusion-Generated Image Detection

Pyramidal Denoising Diffusion Probabilistic Models

Lookahead Diffusion Probabilistic Models for Refining Mean Estimation

Exact Diffusion Inversion via Bi-directional Integration Approximation


Data sets from subject/item type studies in Psychology and Linguistics

Parsimonious Mixed Models

Statistical Methods for Linguistic Research: Foundational Ideas - Part I

The cave of shadows: Addressing the human factor with generalized additive mixed models

Bayesian linear mixed models using Stan: A tutorial for psychologists, linguists, and cognitive scientists

Bush children learn lifelong lessons out of classroom

The quarterly journal of experimental psychology/Quarterly journal of experimental psychology

Production of prosodic cues in coordinate name sequences addressing varying interlocutors

Remember they were emotional - Effects of emotional qualifiers during sentence processing


A package for single-cell Hi-C data clustering and downstream analysis.

Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data

Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain


Welcome to the code repository of CBMV: A Coalesced Bidirectional Matching Volume for Disparity Estimation. CVPR 2018

Continuous 3D Label Stereo Matching Using Local Expansion Moves

IEEE transactions on pattern analysis and machine intelligence


Can Neural Networks Crack Sudoku?

OptNet: Differentiable Optimization as a Layer in Neural Networks

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

Recurrent Relational Networks

Recurrent Relational Networks for complex relational reasoning

Fast and flexible design of novel proteins using graph neural networks

Controlling Neural Networks via Energy Dissipation

Dirichlet Diffusion Score Model for Biological Sequence Generation

A Neural Network for Semigroups


Contrastive unpaired image-to-image translation, faster and lighter training than cyclegan (ECCV 2020, in PyTorch)

Unsupervised Cross-Domain Image Generation

Contrastive Learning for Unpaired Image-to-Image Translation

The Spatially-Correlative Loss for Various Image Translation Tasks

Exploring Patch-wise Semantic Relation for Contrastive Learning in Image-to-Image Translation Tasks

Using Out-of-the-Box Frameworks for Unpaired Image Translation and Image Segmentation for the crossMoDA Challenge

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

ScoreMix: A Scalable Augmentation Strategy for Training GANs With Limited Data

Unsupervised single-shot depth estimation using perceptual reconstruction

Unsupervised Joint Image Transfer and Uncertainty Quantification Using
  Patch Invariant Networks

Image-to-Image Translation of Synthetic Samples for Rare Classes


A library for working with phylogenetic and population genetic data.

Genesis and Gappa: processing, analyzing and visualizing phylogenetic (placement) data

Scalable methods for analyzing and visualizing phylogenetic placement of metagenomic samples

Hyperdiverse archaea near life limits at the polyextreme geothermal Dallol area

Methods for automatic reference trees and multilevel phylogenetic placement

Gene Similarity Networks Unveil a Potential Novel Unicellular Group Closely Related to Animals from the Tara Oceans Expedition


An ultrafast optimal aligner for mapping large NGS data to large genome databases.

Evaluating the Information Content of Shallow Shotgun Metagenomics

Antibiotic-induced acceleration of type 1 diabetes alters maturation of innate intestinal immunity

Technology dictates algorithms: Recent developments in read alignment

Scalable and cost-effective ribonuclease-based rRNA depletion for transcriptomics

BURST enables mathematically optimal short-read alignment for big data

Characterization of the Oral Microbiome Among Children With Type 1 Diabetes Compared With Healthy Children

Alteration of the Gut Microbiome in Normal and Overweight School Children from Selangor with Lactobacillus Fermented Milk Administration

Heterogeneity of gut microbial responses in healthy household dogs transitioning from an extruded to a mildly cooked diet


A Python package which implements several boosting algorithms with different combinations of base learners, optimization algorithms, and loss functions.

Grabit: Gradient tree-boosted Tobit models for default prediction

Gradient and Newton Boosting for Classification and Regression

KTBoost: Combined Kernel and Tree Boosting

NURD: Negative-Unlabeled Learning for Online Datacenter Straggler
  Prediction


Deep learning approaches for statistical downscaling in climate

Configuration and intercomparison of deep learning neural models for statistical downscaling


Graph Convolutional Networks for Text Classification. AAAI 2019

A Survey on Text Classification: From Shallow to Deep Learning

HeteGCN: Heterogeneous Graph Convolutional Networks for Text Classification

Hierarchical Heterogeneous Graph Representation Learning for Short Text Classification

Graph Convolutional Network Based on Multi-Head Pooling for Short Text Classification

A semantic hierarchical graph neural network for text classification

Quartet Logic: A Four-Step Reasoning (QLFR) framework for advancing
  Short Text Classification


Wind energy library, python and matlab tools for wind turbines analyses


Multimodal Unsupervised Image-to-Image Translation

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

StyleGAN2 Distillation for Feed-forward Image Manipulation

Towards Instance-level Image-to-Image Translation

The Spatially-Correlative Loss for Various Image Translation Tasks

Positional Normalization

Unsupervised Multi-modal Style Transfer for Cardiac MR Segmentation

Statistical Atlases and Computational Models of the Heart. Multi-Sequence CMR Segmentation, CRT-EPiggy and LV Full Quantification Challenges

AniGAN: Style-Guided Generative Adversarial Networks for Unsupervised Anime Face Generation

Neural Optimal Transport

Adversarial Self-Defense for Cycle-Consistent GANs


Collecting AMP MIC data from different sources, then running a GAN to output promising sequences

Deep learning regression model for antimicrobial peptide design

PepVAE: Variational Autoencoder Framework for Antimicrobial Peptide Generation and Activity Prediction

Accelerating Antimicrobial Peptide Discovery with Latent Structure


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

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

Coconut E-Petition Implementation


Yorùbá language training text for NLP, ASR and TTS tasks

Massive vs. Curated Word Embeddings for Low-Resourced Languages. The Case of Yorùbá and Twi

The Effect of Domain and Diacritics in Yoruba–English Neural Machine Translation

Improving Yorùbá Diacritic Restoration


A collection of anomaly detection methods (iid/point-based, graph and time series) including active learning for anomaly detection/discovery, bayesian rule-mining, description for diversity/explanation/interpretability. Analysis of incorporating label feedback with ensemble and tree-based detectors. Includes adversarial attacks with Graph Convolutional Network.

Incorporating Feedback into Tree-based Anomaly Detection

Active anomaly detection for time-domain discoveries

Combining Artificial Immune System and Clustering Analysis: A Stock Market Anomaly Detection Model

Journal of intelligent learning systems and applications

Active Anomaly Detection via Ensembles: Insights, Algorithms, and Interpretability.

Towards Automated Imbalanced Learning with Deep Hierarchical Reinforcement Learning

Active Anomaly Detection via Ensembles

GLAD: GLocalized Anomaly Detection via Human-in-the-Loop Learning

GLAD: GLocalized Anomaly Detection via Active Feature Space Suppression.


An R toolkit for estimation of cell composition from bulk expression data

Accurate estimation of cell composition in bulk expression through robust integration of single-cell information

A single-cell analysis of breast cancer cell lines to study tumour heterogeneity and drug response

Deep autoencoder for interpretable tissue-adaptive deconvolution and cell-type-specific gene analysis


A Simple, High-efficiency, Strong framework for person re-Identification.

Learning 3D Shape Feature for Texture-insensitive Person Re-identification

Contextual Non-Local Alignment over Full-Scale Representation for
  Text-Based Person Search

Rethinking Temporal Fusion for Video-based Person Re-identification on Semantic and Time Aspect

One for More: Selecting Generalizable Samples for Generalizable ReID Model

Devil's in the Details: Aligning Visual Clues for Conditional Embedding in Person Re-Identification


The Surprisingly ParalleL spArse Tensor Toolkit.

Scalable Tucker Factorization for Sparse Tensors - Algorithms and Discoveries

International Conference on Data Engineering

Parallel Sparse Tensor Decomposition in Chapel

International Parallel and Distributed Processing Symposium


Creative Commons Attribution Share Alike 4.0 International

NTREX -- News Test References for MT Evaluation

A Benchmark for Evaluating Machine Translation Metrics on Dialects
  Without Standard Orthography

When Does Monolingual Data Help Multilingual Translation: The Role of
  Domain and Model Scale


Deep Learning based cell composition analysis with Scaden.

Deep-learning-based cell composition analysis from tissue expression profiles

DAISM-DNNXMBD: Highly accurate cell type proportion estimation with in silico data augmentation and deep neural networks

Deep Learning in Single-Cell Analysis


Discrete, Gaussian, and Heterogenous HMM models full implemented in Python. Missing data, Model Selection Criteria (AIC/BIC), and Semi-Supervised training supported. Easily extendable with other types of probablistic models.

PyHHMM: A Python Library for Heterogeneous Hidden Markov Models

Heterogeneous Hidden Markov Models for Sleep Activity Recognition from
  Multi-Source Passively Sensed Data

Sleep Activity Recognition and Characterization from Multi-Source
  Passively Sensed Data


Active learning

Bayesian Active Learning for Classification and Preference Learning

Batch Active Learning at Scale


cmix is a lossless data compression program aimed at optimizing compression ratio at the cost of high CPU/memory usage.

Is it time to replace gzip? Comparison of modern compressors for molecular sequence databases

Stream-Based Lossless Data Compression Applying Adaptive Entropy Coding for Hardware-Based Implementation


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

Attention Is All You Need

Semantic Neural Machine Translation using AMR

Transactions of the Association for Computational Linguistics

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

Ancient–Modern Chinese Translation with a New Large Training Dataset

Tackling Graphical NLP problems with Graph Recurrent Networks

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


Handwritten Text Recognition (HTR) system implemented with TensorFlow.

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

DeepErase: Weakly Supervised Ink Artifact Removal in Document Text Images

HWRCNet: Handwritten Word Recognition in JPEG Compressed Domain using
  CNN-BiLSTM Network

Recognizing Learner Handwriting Retaining Orthographic Errors for Enabling Fine-Grained Error Feedback

Workshop on Innovative Use of NLP for Building Educational Applications


ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more

ganon: precise metagenomics classification against large and up-to-date sets of reference sequences

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


Model Predictive Control for Quadrotors with extension to Perception-Aware MPC

PAMPC: Perception-Aware Model Predictive Control for Quadrotors

Model Predictive Control for Micro Aerial Vehicles: A Survey

Towards Fully Autonomous UAVs: A Survey


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

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

Removing the hidden data dependency of DIA with predicted spectral libraries

MS2Rescore: Data-Driven Rescoring Dramatically Boosts Immunopeptide Identification Rates

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

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

Computational and structural biotechnology journal


Predicting total battery cycle life time with machine learning


Ripser++: GPU-accelerated computation of Vietoris–Rips persistence barcodes

GPU-Accelerated Computation of Vietoris-Rips Persistence Barcodes

Manifold Topology Divergence: a Framework for Comparing Data Manifolds

Topological data analysis of black hole images


Multiscale Point Cloud Geometry Compression

Sparse Tensor-Based Multiscale Representation for Point Cloud Geometry Compression


A Comprehensive Benchmark and Toolkit for Evaluating Video-based Large Language Models!

Video-LLaVA: Learning United Visual Representation by Alignment Before
  Projection

LanguageBind: Extending Video-Language Pretraining to N-modality by
  Language-based Semantic Alignment

Chat-UniVi: Unified Visual Representation Empowers Large Language Models
  with Image and Video Understanding

Video-Bench: A Comprehensive Benchmark and Toolkit for Evaluating
  Video-based Large Language Models


Automatically exported from code.google.com/p/ea-utils

Altered intestinal microbiota–host mitochondria crosstalk in new onset Crohn’s disease

An atlas of cortical circular RNA expression in Alzheimer disease brains demonstrates clinical and pathological associations

Allelic Variation of MYB10 Is the Major Force Controlling Natural Variation in Skin and Flesh Color in Strawberry (Fragaria spp.) Fruit

Rapid defense responses in maize leaves induced by Spodoptera exigua caterpillar feeding

DPPA2/4 and SUMO E3 ligase PIAS4 opposingly regulate zygotic transcriptional program

Defining the root endosphere and rhizosphere microbiomes from the World Olive Germplasm Collection

Reduced microbial diversity in adult survivors of childhood acute lymphoblastic leukemia and microbial associations with increased immune activation

Leveraging Human Microbiome Features to Diagnose and Stratify Children with Irritable Bowel Syndrome

The Journal of molecular diagnostics/The journal of molecular diagnostics

Metagenomic Analysis of a Biphenyl-Degrading Soil Bacterial Consortium Reveals the Metabolic Roles of Specific Populations

New Biological Insights Into How Deforestation in Amazonia Affects Soil Microbial Communities Using Metagenomics and Metagenome-Assembled Genomes


Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data

Transmission of SARS-CoV-2 in domestic cats imposes a narrow bottleneck

Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic

Quantifying within-host diversity of H5N1 influenza viruses in humans and poultry in Cambodia

Genetic variation of staphylococcal LukAB toxin determines receptor tropism

Selective constraint and adaptive potential of West Nile virus within and among naturally infected avian hosts and mosquito vectors

Limited SARS-CoV-2 diversity within hosts and following passage in cell culture

Phylogenomic Analysis of Human Papillomavirus Type 31 and Cervical Carcinogenesis: A Study of 2093 Viral Genomes

Vaccination decreases the risk of influenza A virus reassortment but not genetic variation in pigs


scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources, thereby allowing for the correction of confounding sources of variation.

Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells

Single-Cell Transcriptomics Bioinformatics and Computational Challenges

Computational approaches for interpreting scRNA-seq data

Toward uncharted territory of cellular heterogeneity: advances and applications of single-cell RNA-seq

Journal of translational genetics and genomics


DSTC9 Track 1 - Beyond Domain APIs: Task-oriented Conversational Modeling with Unstructured Knowledge Access

Overview of the Ninth Dialog System Technology Challenge: DSTC9

"How Robust r u?": Evaluating Task-Oriented Dialogue Systems on Spoken
  Conversations

Beyond Domain APIs: Task-oriented Conversational Modeling with Unstructured Knowledge Access Track in DSTC9

Can I Be of Further Assistance? Using Unstructured Knowledge Access to Improve Task-oriented Conversational Modeling

Towards Zero and Few-shot Knowledge-seeking Turn Detection in Task-orientated Dialogue Systems

Robust Unstructured Knowledge Access in Conversational Dialogue with ASR Errors

IEEE International Conference on Acoustics, Speech, and Signal Processing


Quickly comparing your image classification models with the state-of-the-art models (such as DenseNet, ResNet, ...)

Deep Residual Learning for Image Recognition

Improved Regularization of Convolutional Neural Networks with Cutout

Deep Networks with Stochastic Depth

Regularization in ResNet with Stochastic Depth


Implementations in both Matlab and R of the SIMLR method. The manuscript of the method is available at: https://www.nature.com/articles/nmeth.4207

SIMLR: a tool for large-scale single-cell analysis by multi-kernel learning

A Comparison for Dimensionality Reduction Methods of Single-Cell RNA-seq Data

Random forest based similarity learning for single cell RNA sequencing data

SSCC: A Novel Computational Framework for Rapid and Accurate Clustering Large-scale Single Cell RNA-seq Data

基因组蛋白质组与生物信息学报

Analysis and Visualization of Spatial Transcriptomic Data

Comparison of unsupervised machine-learning methods to identify metabolomic signatures in patients with localized breast cancer

Revealing heterogeneity of brain imaging phenotypes in Alzheimer’s disease based on unsupervised clustering of blood marker profiles

Deep Learning in Single-Cell Analysis

Clustering with feature selection using alternating minimization, Application to computational biology


Keras code and weights files for popular deep learning models.

Very Deep Convolutional Networks for Large-Scale Image Recognition

Rethinking the Inception Architecture for Computer Vision

Feature Squeezing: Detecting Adversarial Examples in Deep Neural Networks

Proceedings 2018 Network and Distributed System Security Symposium

Improved inception-residual convolutional neural network for object recognition

MLRSNet: A Multi-label High Spatial Resolution Remote Sensing Dataset for Semantic Scene Understanding

Robust Screening of COVID-19 from Chest X-ray via Discriminative Cost-Sensitive Learning

Adversarial Examples Versus Cloud-based Detectors: A Black-box Empirical Study

Depth Semantic Segmentation of Tobacco Planting Areas from Unmanned Aerial Vehicle Remote Sensing Images in Plateau Mountains

Deep multi-view semi-supervised clustering with sample pairwise constraints


Pytorch port of Google Research's VGGish model used for extracting audio features.

CNN Architectures for Large-Scale Audio Classification

Continuous Emotion Recognition using Visual-audio-linguistic Information: A Technical Report for ABAW3

Multimodal Continuous Emotion Recognition: A Technical Report for ABAW5

FakeSV: A Multimodal Benchmark with Rich Social Context for Fake News
  Detection on Short Video Platforms

Low-Resource Music Genre Classification with Cross-Modal Neural Model Reprogramming

A Hybrid Neuro-Symbolic Approach for Complex Event Processing

Rank-Based Loss For Learning Hierarchical Representations

Audio Embeddings as Teachers for Music Classification

Detecting Kissing Scenes in a Database of Hollywood Films

Automated Audio Captioning and Language-Based Audio Retrieval


CNN Image Retrieval in PyTorch: Training and evaluating CNNs for Image Retrieval in PyTorch

Fine-tuning CNN Image Retrieval with No Human Annotation

CNN Image Retrieval Learns from BoW: Unsupervised Fine-Tuning with Hard Examples

Training Vision Transformers for Image Retrieval

SOLAR: Second-Order Loss and Attention for Image Retrieval

Learning and aggregating deep local descriptors for instance-level recognition

Deep Learning for Instance Retrieval: A Survey

OS2D: One-Stage One-Shot Object Detection by Matching Anchor Features

Asymmetric metric learning for knowledge transfer

No Fear of the Dark: Image Retrieval under Varying Illumination Conditions

Progressive Local Filter Pruning for Image Retrieval Acceleration


SAM: Sharpness-Aware Minimization (PyTorch)

Sharpness-Aware Minimization for Efficiently Improving Generalization

ASAM: Adaptive Sharpness-Aware Minimization for Scale-Invariant Learning of Deep Neural Networks

Sharp-MAML: Sharpness-Aware Model-Agnostic Meta Learning

On the Maximum Hessian Eigenvalue and Generalization

Investigating the Impact of Model Misspecification in Neural
  Simulation-based Inference

Low-Pass Filtering SGD for Recovering Flat Optima in the Deep Learning Optimization Landscape

Escaping Saddle Points for Effective Generalization on Class-Imbalanced
  Data

A comparative study between vision transformers and CNNs in digital
  pathology

Baby Llama: knowledge distillation from an ensemble of teachers trained on a small dataset with no performance penalty

Generalization Techniques Empirically Outperform Differential Privacy against Membership Inference


State-of-the-art audio codec with 90x compression factor. Supports 44.1kHz, 24kHz, and 16kHz mono/stereo audio.

High-Fidelity Audio Compression with Improved RVQGAN

Natural language guidance of high-fidelity text-to-speech with synthetic
  annotations


geodesic distance transform of 2d/3d images

DeepIGeoS: A Deep Interactive Geodesic Framework for Medical Image Segmentation

MIDeepSeg: Minimally Interactive Segmentation of Unseen Objects from Medical Images Using Deep Learning

FastGeodis: Fast Generalised Geodesic Distance Transform

Interactive medical image segmentation with self-adaptive confidence calibration


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

Node Embedding with Adaptive Similarities for Scalable Learning over Graphs

Evaluating Node Embeddings of Complex Networks

QUINT: Node embedding using network hashing

IEEE transactions on knowledge and data engineering

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

Massively Parallel Graph Drawing and Representation Learning


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

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

SEMQA: Semi-Extractive Multi-Source Question Answering

Citation-Enhanced Generation for LLM-based Chatbots


Attentive Group Recommendation

ConsRec: Learning Consensus Behind Interactions for Group Recommendation

Deep Reinforcement Learning based Group Recommender System

DeepGroup: Representation Learning for Group Recommendation with Implicit Feedback


Matlab routines for online non-rigid motion correction of calcium imaging data

Negative feedback control of neuronal activity by microglia

Circuit Investigations With Open-Source Miniaturized Microscopes: Past, Present and Future

Two-photon imaging of neuronal activity in motor cortex of marmosets during upper-limb movement tasks

Generating parallel representations of position and identity in the olfactory system

Neural network features distinguish chemosensory stimuli in Caenorhabditis elegans

Voltage dynamics of dendritic integration and back-propagation in vivo.

bioRxiv : the preprint server for biology

SpecSeg is a versatile toolbox that segments neurons and neurites in chronic calcium imaging datasets based on low-frequency cross-spectral power

Anatomical organization of temporally correlated neural calcium activity in the hippocampal CA1 region


非常全的文言文（古文）-现代文平行语料

Disco-Bench: A Discourse-Aware Evaluation Benchmark for Language
  Modelling

Enhancing Ancient Chinese Understanding with Derived Noisy Syntax Trees

Proceedings of the 61st Annual Meeting of the Association for Computational Linguistics (Volume 4: Student Research Workshop)

Ancient Chinese Word Segmentation and Part-of-Speech Tagging Using Distant Supervision

Towards Effective Ancient Chinese Translation: Dataset, Model, and
  Evaluation


Proper implementation of ResNet-s for CIFAR10/100 in pytorch that matches description of the original paper.

Deep Residual Learning for Image Recognition

R-Drop: Regularized Dropout for Neural Networks

Functional Adversarial Attacks

Decoupled Contrastive Learning

Convolutional Dynamic Alignment Networks for Interpretable Classifications

QuPeD: Quantized Personalization via Distillation with Applications to Federated Learning

Initialization and Regularization of Factorized Neural Layers

Rare Gems: Finding Lottery Tickets at Initialization

DeepView: Visualizing Classification Boundaries of Deep Neural Networks as Scatter Plots Using Discriminative Dimensionality Reduction

Understanding AdamW through Proximal Methods and Scale-Freeness


Constrained Nonnegative Matrix Factorization for microEndoscopic data

Efficient and accurate extraction of in vivo calcium signals from microendoscopic video data

Circuit Investigations With Open-Source Miniaturized Microscopes: Past, Present and Future

A gut-to-brain signal of fluid osmolarity controls thirst satiation

Heterogeneous Habenular Neuronal Ensembles during Selection of Defensive Behaviors

Dorsal periaqueductal gray ensembles represent approach and avoidance states

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

Elucidating a locus coeruleus-dentate gyrus dopamine pathway for operant reinforcement

A Hypothalamic Circuit Underlying the Dynamic Control of Social Homeostasis

Sevoflurane-induced amnesia is associated with inhibition of hippocampal cell ensemble activity after learning


Alluvial diagrams

Developmental trajectory of the healthy human gut microbiota during the first 5 years of life.

A Widespread Neurogenic Potential of Neocortical Astrocytes Is Induced by Injury

Reconfiguration of Cortical Networks in MDD Uncovered by Multiscale Community Detection with fMRI

Multiple roles of H2A.Z in regulating promoter chromatin architecture in human cells

Concordance of Immunohistochemistry-Based and Gene Expression-Based Subtyping in Breast Cancer

Computational identification of repurposed drugs against viruses causing epidemics and pandemics via drug-target network analysis

Comparison of metadata with relevance for bibliometrics between
  Microsoft Academic Graph and OpenAlex until 2020

Scores of a specific field-normalized indicator calculated with different approaches of field-categorization: Are the scores different or similar?

New insights into the epidemiology of Listeria monocytogenes – A cross-sectoral retrospective genomic analysis in the Netherlands (2010–2020)

Nest relief in the cryptically-incubating semipalmated sandpiper is quick, but vocal


Udacity Self-Driving Car Engineer Nanodegree projects.

Paracosm: A Language and Tool for Testing Autonomous Driving Systems

VERIFAI: A Toolkit for the Design and Analysis of Artificial Intelligence-Based Systems

Implementation of NAO Robot Maze Navigation Based on Computer Vision and Collaborative Learning

A pipeline framework for robot maze navigation using computer vision, path planning and communication protocols

International Conference on Developments in eSystems Engineering


Optimal Transport Dataset Distance

Dataset Dynamics via Gradient Flows in Probability Space

Cross-Modal Fine-Tuning: Align then Refine

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

Generating Synthetic Datasets by Interpolating along Generalized
  Geodesics

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


Elegant implementations of offline safe RL algorithms in PyTorch

Constrained Decision Transformer for Offline Safe Reinforcement Learning

Datasets and Benchmarks for Offline Safe Reinforcement Learning

Uncertainty-Aware Decision Transformer for Stochastic Driving
  Environments


Oxford Nanopore Technologies fast5 API software

Detection of Viral Pathogens With Multiplex Nanopore MinION Sequencing: Be Careful With Cross-Talk

Fast nanopore sequencing data analysis with SLOW5

Methylartist: tools for visualizing modified bases from nanopore sequence data

Concerted modification of nucleotides at functional centers of the ribosome revealed by single-molecule RNA modification profiling

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

Barcode aware adaptive sampling for GridION and PromethION Oxford Nanopore sequencers

Benchmarking of computational methods for m6A profiling with Nanopore direct RNA sequencing

Computer Architecture-Aware Optimisation of DNA Analysis Systems

Whole-genome DNA methylome analysis of different developmental stages of the entomopathogenic fungus Beauveria bassiana NCHU-157 by nanopore sequencing


Marching cubes (and related tools) for Python

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

3D generation on ImageNet

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

Occupancy Planes for Single-view RGB-D Human Reconstruction

Learning Neural Radiance Fields from Multi-View Geometry

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


Pipeline to generate the Standardized Project Gutenberg Corpus

A standardized Project Gutenberg corpus for statistical analysis of natural language and quantitative linguistics

Can Pre-trained Language Models Interpret Similes as Smart as Human?


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

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

Making sense of big data

The Family of MapReduce and Large Scale Data Processing Systems

Muppet: MapReduce-Style Processing of Fast Data

Efficient Distributed Locality Sensitive Hashing

VScope: Middleware for Troubleshooting Time-Sensitive Data Center Applications

Does Technical Debt Lead to the Rejection of Pull Requests?

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

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

A Survey on Transactional Stream Processing


Partially Observable Process Gym

Empirical Evaluation of Gated Recurrent Neural Networks on Sequence Modeling

Playing Atari with Deep Reinforcement Learning

An Empirical Evaluation of Generic Convolutional and Recurrent Networks for Sequence Modeling

On the Parameterization and Initialization of Diagonal State Space
  Models

POPGym: Benchmarking Partially Observable Reinforcement Learning


Recurrent Highway Networks - Implementations for Tensorflow, Torch7, Theano and Brainstorm

Recurrent Highway Networks

Structured Pruning of Recurrent Neural Networks through Neuron Selection

Using Regular Languages to Explore the Representational Capacity of Recurrent Neural Architectures

Cross Entropy of Neural Language Models at Infinity—A New Bound of the Entropy Rate


Features selector based on the self selected-algorithm, loss function and validation method

AutoML to Date and Beyond: Challenges and Opportunities

Feature Selection Algorithms as One of the Python Data Analytical Tools


On the Variance of the Adaptive Learning Rate and Beyond

SMART: Robust and Efficient Fine-Tuning for Pre-trained Natural Language Models through Principled Regularized Optimization

Meeting of the Association for Computational Linguistics

Improving Multi-Task Deep Neural Networks via Knowledge Distillation for Natural Language Understanding

The Microsoft Toolkit of Multi-Task Deep Neural Networks for Natural Language Understanding

PLATON: Pruning Large Transformer Models with Upper Confidence Bound of Weight Importance

Architectural Patterns for the Design of Federated Learning Systems

A Hybrid Neural Network Model for Commonsense Reasoning

FLRA: A Reference Architecture for Federated Learning Systems

CLUES: Few-Shot Learning Evaluation in Natural Language Understanding

Adversarial Regularization as Stackelberg Game: An Unrolled Optimization Approach


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

Open-World Entity Segmentation

High Quality Segmentation for Ultra High-resolution Images

High-Quality Entity Segmentation

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

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

AIMS: All-Inclusive Multi-Level Segmentation

Rethinking Evaluation Metrics of Open-Vocabulary Segmentaion

Automatically Discovering Novel Visual Categories with Self-supervised
  Prototype Learning

UniGS: Unified Representation for Image Generation and Segmentation


Coronavirus (COVID-19) UK Historical Data

Covid-19: Open-Data Resources for Monitoring, Modeling, and Forecasting the Epidemic

Open Data Resources for Fighting COVID-19

Testing and tracking in the UK: A dynamic causal modelling study

COVID-19 incidence and R decreased on the Isle of Wight after the launch of the Test, Trace, Isolate programme

Tracking and tracing in the UK: a dynamic causal modelling study

Visualising the Evolution of English Covid-19 Cases with Topological Data Analysis Ball Mapper


SAFE: Self-Attentive Function Embeddings for binary similarity

SAFE: Self-Attentive Function Embeddings for Binary Similarity

Semantic-aware Binary Code Representation with BERT

XFL: Naming Functions in Binaries with Extreme Multi-label Learning

FuncFooler: A Practical Black-box Attack Against Learning-based Binary
  Code Similarity Detection Methods

UniASM: Binary Code Similarity Detection without Fine-tuning


Behavioral segmentation of open field in DeepLabCut, or B-SOID ("B-side"), is a pipeline that pairs unsupervised pattern recognition with supervised classification to achieve fast predictions of behaviors that are not predefined by users.

UMAP: Uniform Manifold Approximation and Projection for Dimension Reduction

DeeperCut: A Deeper, Stronger, and Faster Multi-person Pose Estimation Model

B-SOiD: An Open Source Unsupervised Algorithm for Discovery of Spontaneous Behaviors

Open-source tools for behavioral video analysis: Setup, methods, and best practices

Behavioral and nociceptor states of inflammatory pain across timescales in 2D and 3D

Mapping the Signatures of Inflammatory Pain and Its Relief

Rapid, automated, and experimenter-free touchscreen testing reveals reciprocal interactions between cognitive flexibility and activity-based anorexia in female rats

Pan-cortical 2-photon mesoscopic imaging and neurobehavioral alignment in awake, behaving mice


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


Deep Modular Co-Attention Networks for Visual Question Answering

In Defense of Grid Features for Visual Question Answering

An Improved Attention for Visual Question Answering

Sparse and Continuous Attention Mechanisms

SimVQA: Exploring Simulated Environments for Visual Question Answering

Multimodal Continuous Visual Attention Mechanisms

Sparse Continuous Distributions and Fenchel-Young Losses

Video Language Co-Attention with Multimodal Fast-Learning Feature Fusion for VideoQA

Workshop on Representation Learning for NLP

Siamese Tracking with Lingual Object Constraints


Mirror of the Basalt repository. All pull requests and issues should be sent to https://gitlab.com/VladyslavUsenko/basalt

The TUM VI Benchmark for Evaluating Visual-Inertial Odometry

Visual-Inertial Mapping With Non-Linear Factor Recovery

International Conference on Robotics and Automation

The Double Sphere Camera Model

Efficient Derivative Computation for Cumulative B-Splines on Lie Groups

HybVIO: Pushing the Limits of Real-time Visual-inertial Odometry


The Language-Integrated Quantum Operations (LIQUi|>) Simulator

Quantum resource estimates for computing elliptic curve discrete
  logarithms

Statistical Assertions for Validating Patterns and Finding Bugs in Quantum Programs

PROCEEDINGS OF THE 2019 46TH INTERNATIONAL SYMPOSIUM ON COMPUTER ARCHITECTURE (ISCA '19)

QDB: From Quantum Algorithms Towards Correct Quantum Programs


Make continuous reforestation part of your daily workflow :deciduous_tree:


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


Video PreTraining (VPT): Learning to Act by Watching Unlabeled Online Videos

STEVE-1: A Generative Model for Text-to-Behavior in Minecraft

GROOT: Learning to Follow Instructions by Watching Gameplay Videos

Towards Solving Fuzzy Tasks with Human Feedback: A Retrospective of the
  MineRL BASALT 2022 Competition

Behavioral Cloning via Search in Embedded Demonstration Dataset

MineDreamer: Learning to Follow Instructions via Chain-of-Imagination for Simulated-World Control

Discovering Hierarchical Achievements in Reinforcement Learning via
  Contrastive Learning


Learning Model Predictive Controllers with Real-Time Attention for
  Real-World Navigation

CALIPSO: A Differentiable Solver for Trajectory Optimization with Conic
  and Complementarity Constraints

Agile Catching with Whole-Body MPC and Blackbox Policy Learning

DiffTOP: Differentiable Trajectory Optimization for Deep Reinforcement
  and Imitation Learning

The Power of Learned Locally Linear Models for Nonlinear Policy
  Optimization


[CVPR2023] The official repo for OC-SORT: Observation-Centric SORT on video Multi-Object Tracking. OC-SORT is simple, online and robust to occlusion/non-linear motion.

Simple online and realtime tracking

International Conference on Information Photonics

Observation-Centric SORT: Rethinking SORT for Robust Multi-Object Tracking

Deep OC-SORT: Multi-Pedestrian Tracking by Adaptive Re-Identification


Joint Neural Relation Extraction with Text and KGs

Neural Knowledge Acquisition via Mutual Attention Between Knowledge Graph and Text

THIRTY-SECOND AAAI CONFERENCE ON ARTIFICIAL INTELLIGENCE / THIRTIETH INNOVATIVE APPLICATIONS OF ARTIFICIAL INTELLIGENCE CONFERENCE / EIGHTH AAAI SYMPOSIUM ON EDUCATIONAL ADVANCES IN ARTIFICIAL INTELLIGENCE

Distantly Supervised Biomedical Knowledge Acquisition via Knowledge Graph Based Attention

Proceedings of the Workshop on Extracting Structured Knowledge from Scientific Publications

Text-Augmented Open Knowledge Graph Completion via Pre-Trained Language
  Models


Simple image captioning model

Prefix-Tuning: Optimizing Continuous Prompts for Generation

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

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

ClipCap: CLIP Prefix for Image Captioning

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

The Creativity of Text-to-Image Generation

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

Discovering and Mitigating Visual Biases through Keyword Explanation

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


Source materials supporting Stripe Climate carbon removal purchases (http://stripe.com/climate)


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

Global radiation in a rare biosphere soil diatom

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

Identification of a neural basis for cold acclimation in Drosophila larvae

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

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

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


DenseNet implementation in Keras

Densely Connected Convolutional Networks

Feature Squeezing: Detecting Adversarial Examples in Deep Neural Networks

Dense and Diverse Capsule Networks: Making the Capsules Learn Better

Analysis and Optimization of Convolutional Neural Network Architectures

LipschitzLR: Using theoretically computed adaptive learning rates for fast convergence

Fast and Accurate Sparse Coding of Visual Stimuli With a Simple, Ultralow-Energy Spiking Architecture

IEEE transactions on neural networks and learning systems

A novel adaptive learning rate scheduler for deep neural networks.

Natural Language Inference over Interaction Space: ICLR 2018 Reproducibility Report

Detecting Coronary Artery Disease from Computed Tomography Images Using a Deep Learning Technique

Using Undervolting as an on-Device Defense Against Adversarial Machine Learning Attacks


speaker diarization by uis-rnn and speaker embedding by vgg-speaker-recognition

Utterance-level Aggregation For Speaker Recognition In The Wild

CN-Celeb: multi-genre speaker recognition

A Multi-Purpose Audio-Visual Corpus for Multi-Modal Persian Speech
  Recognition: the Arman-AV Dataset


AI Research Platform for Reinforcement Learning from Real Panoramic Images.

Vision-and-Language Navigation: Interpreting visually-grounded navigation instructions in real environments

How Much Can CLIP Benefit Vision-and-Language Tasks?

Look Before You Leap: Bridging Model-Free and Model-Based Reinforcement Learning for Planned-Ahead Vision-and-Language Navigation

Chasing Ghosts: Instruction Following as Bayesian State Tracking

Inverse Reinforcement Learning with Natural Language Goals

Vision-language navigation: a survey and taxonomy


Open source release of the evaluation benchmark suite described in  "Realistic Evaluation of Deep Semi-Supervised Learning Algorithms"

Deep Metric Transfer for Label Propagation with Limited Annotated Data

Class-Imbalanced Semi-Supervised Learning

Don't fear the unlabelled: safe semi-supervised learning via simple
  debiasing


Kernel Point Convolution implemented in PyTorch

KPConv: Flexible and Deformable Convolution for Point Clouds

PAConv: Position Adaptive Convolution with Dynamic Kernel Assembling on Point Clouds

Rethinking Network Design and Local Geometry in Point Cloud: A Simple
  Residual MLP Framework

Mix3D: Out-of-Context Data Augmentation for 3D Scenes

Unsupervised Learning of Lidar Features for Use in a Probabilistic
  Trajectory Estimator

What Can be Seen is What You Get: Structure Aware Point Cloud Augmentation


Extension of the original word2vec using different architectures

Two/Too Simple Adaptations of Word2Vec for Syntax Problems

North American Chapter of the Association for Computational Linguistics

Evaluation of Word Vector Representations by Subspace Alignment

Empirical Methods in Natural Language Processing

State-of-the-art Chinese Word Segmentation with Bi-LSTMs

Learning the Curriculum with Bayesian Optimization for Task-Specific Word Representation Learning

Unsupervised POS Induction with Word Embeddings

Exploring Segment Representations for Neural Segmentation Models

Intrinsic Subspace Evaluation of Word Embedding Representations

Learning Word Representations from Scarce and Noisy Data with Embedding Subspaces

PROCEEDINGS OF THE 53RD ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS AND THE 7TH INTERNATIONAL JOINT CONFERENCE ON NATURAL LANGUAGE PROCESSING, VOL 1

Putting RDF2vec in Order

Automated Detection of Non-Relevant Posts on the Russian Imageboard "2ch": Importance of the Choice of Word Representations


Code for our ACM RecSys 2017 paper "Personalizing Session-based Recommendation with Hierarchical Recurrent Neural Networks"

Personalizing Session-based Recommendations with Hierarchical Recurrent Neural Networks

PROCEEDINGS OF THE ELEVENTH ACM CONFERENCE ON RECOMMENDER SYSTEMS (RECSYS'17)

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

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

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


Simple, fast unsupervised word aligner

A Simple, Fast, and Effective Reparameterization of IBM Model 2

CodeXGLUE: A Machine Learning Benchmark Dataset for Code Understanding and Generation

Universal Neural Machine Translation for Extremely Low Resource Languages

Understanding Knowledge Distillation in Non-autoregressive Machine Translation

End-to-End Slot Alignment and Recognition for Cross-Lingual NLU

Deep Encoder, Shallow Decoder: Reevaluating Non-autoregressive Machine Translation

Boosting Neural Machine Translation with Similar Translations

Code-Switched Language Models Using Neural Based Synthetic Data from
  Parallel Sentences

In-context Examples Selection for Machine Translation

If all you have is a bit of the Bible: Learning POS taggers for truly low-resource languages

PROCEEDINGS OF THE 53RD ANNUAL MEETING OF THE ASSOCIATION FOR COMPUTATIONAL LINGUISTICS (ACL) AND THE 7TH INTERNATIONAL JOINT CONFERENCE ON NATURAL LANGUAGE PROCESSING (IJCNLP), VOL 2


Covid-19 Twitter dataset for non-commercial research use and pre-processing scripts - under active development

A large-scale COVID-19 Twitter chatter dataset for open scientific research -- an international collaboration

Understanding the Public Discussion About the Centers for Disease Control and Prevention During the COVID-19 Pandemic Using Twitter Data: Text Mining Analysis Study

ESTeR: Combining Word Co-occurrences and Word Associations for Unsupervised Emotion Detection

A comparative study of Bot Detection techniques methods with an application related to Covid-19 discourse on Twitter

Visual Analytics of Twitter and Social Media Dataflows: a Casestudy of COVID-19 Rumors

Users' Reactions on Announced Vaccines against COVID-19 Before Marketing in France: Analysis of Twitter posts


Code for reproducing Manifold Mixup results (ICML 2019)

Manifold Mixup: Better Representations by Interpolating Hidden States

Manifold Mixup: Learning Better Representations by Interpolating Hidden States

k-Mixup Regularization for Deep Learning via Optimal Transport


PILOT: A Pre-trained Model-Based Continual Learning Toolbox

PILOT: A Pre-Trained Model-Based Continual Learning Toolbox

Continual Learning with Pre-Trained Models: A Survey


Learning Image-adaptive 3D Lookup Tables for High Performance Photo Enhancement in Real-time

IEEE transactions on pattern analysis and machine intelligence

AdaInt: Learning Adaptive Intervals for 3D Lookup Tables on Real-time Image Enhancement

Controllable Image Enhancement


Keras + Gaussian Processes: Learning scalable deep and recurrent kernels.

Learning Scalable Deep Kernels with Recurrent Structure

Thoughts on Massively Scalable Gaussian Processes

Deep recurrent Gaussian process with variational Sparse Spectrum approximation


[DEPRECATED] Command line tools for recording, replaying and mirroring touchscreen events for Android

Translating Video Recordings of Mobile App Usages into Replayable Scenarios

International Conference on Software Engineering

Prompting Is All You Need: Automated Android Bug Replay with Large
  Language Models

GIFdroid: Automated Replay of Visual Bug Reports for Android Apps

Translating Video Recordings of Complex Mobile App UI Gestures into Replayable Scenarios

Visual Identification of Mobile App GUI Elements for Automated Robotic Testing

Computational intelligence and neuroscience

Learning-Replay Based Automated Robotic Testing for Mobile App


pytorch implementation of openai paper "Glow: Generative Flow with Invertible 1×1 Convolutions"

MoGlow: Probabilistic and controllable motion synthesis using normalising flows

Let's Face It: Probabilistic Multi-modal Interlocutor-aware Generation of Facial Gestures in Dyadic Settings

Proceedings of the 20th ACM International Conference on Intelligent Virtual Agents

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

Evaluating Out-of-Distribution Detectors Through Adversarial Generation
  of Outliers

On Investigation of Unsupervised Speech Factorization Based on Normalization Flow


Audio generation using diffusion models, in PyTorch.

Simple and Controllable Music Generation

Moûsai: Text-to-Music Generation with Long-Context Latent Diffusion

Multi-Source Diffusion Models for Simultaneous Music Generation and
  Separation

Masked Audio Generation using a Single Non-Autoregressive Transformer


RHadoop

A Survey of Statistical Methods and Computing for Big Data

Big Data Systems Meet Machine Learning Challenges: Towards Big Data Science as a Service

A Tale of Two Data-Intensive Paradigms: Applications, Abstractions, and Architectures

kamila: Clustering Mixed-Type Data in R and Hadoop

A Survey on Spatio-temporal Data Analytics Systems

A tm Plug-In for Distributed Text Mining in R

ROSA: R Optimizations with Static Analysis