Trending repositories

301.vlang / vsl

V library to develop Artificial Intelligence and High-Performance Scientific Computations

• v
• hacktoberfest
• linear-algebra
• optimization
• sparse-systems
• computational-geometry
• +7 more

302.thinng / GraphDTA

GraphDTA: Predicting drug-target binding affinity with graph neural networks

303.kaapana / kaapana

Kaapana is an open source toolkit for state of the art platform provisioning in the field of medical data analysis. The applications comprise AI-based workflows and federated learning scenarios with a focus on radiological and radiotherapeutic imaging. The name Kaapana comes from the Hawaiian word kaʻāpana, meaning "distributor" or "part".

• imaging
• ai
• cloud-computing
• medical-imaging
• medical-image-processing
• platform
• +1 more

304.govalues / decimal

Correctly rounded decimals for Go

• decimal
• financial
• floating-point
• general-decimal-arithmetic
• go
• golang
• +2 more

305.theislab / chemCPA

Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.

• disentanglement
• drug-discovery
• genomics
• perturbation
• single-cell
• transfer-learning

306.fcambus / ansiweather

Weather in terminal, with ANSI colors and Unicode symbols

• weather
• terminal
• ansi
• unicode

307.attaswift / BigInt

Arbitrary-precision arithmetic in pure Swift

308.AstraZeneca / chemicalx

A PyTorch and TorchDrug based deep learning library for drug pair scoring. (KDD 2022)

• deep-learning
• pytorch
• deep-chemistry
• graph-neural-network
• drug
• drug-pair
• +13 more

309.vcflib / vcflib

C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings

• variant-calling
• genomics
• vcf-manipulation
• genotyping
• haplotypecaller

310.excessive / cpml

Cirno's Perfect Math Library: Just about everything you need for 2D/3D games. Hopefully.

• math

311.boostorg / multiprecision

Boost.Multiprecision

312.GeomScale / volesti

Practical volume computation and sampling in high dimensions

• geometry
• statistics
• polyhedral-computations
• random-walk
• sampling
• volume
• +6 more

313.Perturbation-Response-Prediction / PRnet

PRnet is a flexible and scalable perturbation-conditioned generative model predicting transcriptional responses to unseen complex perturbations at bulk and single-cell levels.

314.sohmandal / classpose

A foundation model-driven whole slide image-scale cell phenotyping method with QuPath integration Resources

• bioimage-analysis
• cell-classification
• computer-vision
• digital-pathology
• foundation-models
• microscopy

315.romeric / Fastor

A lightweight high performance tensor algebra framework for modern C++

• tensors
• tensor-contraction
• multidimensional-arrays
• simd
• hpc
• small-blas
• +1 more

316.PaddlePaddle / Quantum

The repository host gives no description.

317.wengong-jin / icml18-jtnn

Junction Tree Variational Autoencoder for Molecular Graph Generation (ICML 2018)

318.ruby-numo / numo-narray

Ruby/Numo::NArray - New NArray class library

• numo
• narray
• ruby
• ruby-numo
• scientific-computing

319.fastlib / fCWT

The fast Continuous Wavelet Transform (fCWT) is a library for fast calculation of CWT.

• cwt
• matlab
• cpp
• optimization
• c
• fast
• +3 more

320.yiqunchen / GenePT

The repository host gives no description.

321.ckormanyos / wide-integer

Wide-Integer implements a generic C++ template for uint128_t, uint256_t, uint512_t, uint1024_t, etc.

• high-performance
• embedded-systems
• multiprecision
• numerical
• uint128
• uint256
• +6 more

322.ImagingDataCommons / slim

Interoperable web-based DICOM slide microscopy viewer and annotation tool

• dicomweb
• oidc
• react
• digital-pathology
• idc-viewers

323.vlang / vtl

The V Tensor Library

• v
• hacktoberfest
• autograd
• deep-learning
• linear-algebra
• machine-learning
• +5 more

324.kreshuklab / panseg

A tool for cell instance aware segmentation in densely packed 3D volumetric images

• segmentation
• deep-learning
• bioinformatics
• neural-network
• bioimage-analysis
• image-segmentation
• +1 more

325.LigandPro / Matcha

Multi-stage Riemannian flow matching for physically valid molecular docking, with GNINA scoring, PoseBusters filtering, CLI inference, and benchmarks.

• alphafold3
• docking
• drug-design
• drug-discovery
• flowmatching
• gnina
• +8 more

326.yt-project / yt

Main yt repository

• data
• visualization
• analysis
• python
• scientific-computing
• scientific-visualization
• +6 more

327.seyonechithrananda / bert-loves-chemistry

bert-loves-chemistry: a repository of HuggingFace models applied on chemical SMILES data for drug design, chemical modelling, etc.

• huggingface
• bert
• chemical-modelling
• chemical-smiles-data

328.theislab / scarches

Reference mapping for single-cell genomics

• single-cell
• deep-learning
• rna-seq-analysis
• data-integration
• batch-correction
• multimodal-deep-learning
• +4 more

329.damienBloch / inkscape-raytracing

An extension for Inkscape that makes it easier to draw optical diagrams.

• inkscape-extension
• optics-simulation
• python
• optics

330.hkmztrk / DeepDTA

Source code for "DeepDTA: deep drug-target binding affinity prediction"

• protein-ligand-interactions
• convolutional-neural-networks

331.reaktoro / reaktoro

a unified framework for modeling chemically reactive systems

• chemical-equilibrium
• chemical-kinetics
• reactive-transport
• chemical-reactions
• geochemical
• geochemical-modeling

332.brainglobe / brainglobe-atlasapi

A Python interface to access neuroanatomical atlases

• neuroscience
• python
• microscopy
• registration
• visualisation
• brain
• +1 more

333.hectornieto / pyTSEB

A python Two Source Energy Balance model for estimation of evapotranspiration with remote sensing data

• source-energy-balance
• canopy
• soil
• radiometric-temperatures
• heat
• satellite-imagery
• +1 more

334.jokruger / dec128

Zero-dependency 128-bit fixed-point decimal for Go. Exact SQL NUMERIC / PostgreSQL semantics, no heap allocation, no panics — built for money, ledgers and banking arithmetic.

• decimal
• fixed-point
• go
• golang
• finance
• money
• +11 more

335.cafferychen777 / ChatSpatial

MCP server for spatial transcriptomics analysis through natural language interfaces.

• bioinformatics
• cell-communication
• deconvolution
• machine-learning
• python
• single-cell
• +14 more

336.facebookarchive / prepackArchived

A JavaScript bundle optimizer.

• javascript
• optimization

337.thi-ng / geom

2D/3D geometry toolkit for Clojure/Clojurescript

• geometry
• visualization
• mesh-generation
• opengl
• webgl
• voxel
• +6 more

338.YuLab-SMU / ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

• r
• visualization
• phylogenetic-trees
• annotations
• ggplot2

339.salesforce / progen

Official release of the ProGen models

• language-model
• protein
• generative-model

340.HeliXonProtein / OmegaFold

OmegaFold Release Code

341.aeturrell / skimpy

skimpy is a light weight tool that provides summary statistics about variables in data frames within the console.

• eda
• pandas
• data-science
• exploratory-data-analysis
• summary-statistics
• statistics

342.calico / basenji

Sequential regulatory activity predictions with deep convolutional neural networks.

343.blueqat / blueqatSDK

Quantum Computer Library for Everyone

• quantum
• python
• quantum-computing
• quantum-algorithms
• quantum-programming-language
• quantum-computer-simulator
• +1 more

344.chembl / ChEMBL_Structure_Pipeline

ChEMBL database structure pipelines

345.ECSIM / opem

OPEM (Open Source PEM Fuel Cell Simulation Tool)

• chemistry
• pem
• fuel-cell
• opem
• script
• python
• +8 more

346.PytorchConnectomics / pytorch_connectomics

PyTorch Connectomics: segmentation toolbox for EM connectomics

• computer-vision
• neuroscience
• connectomics
• pytorch
• segmentation
• biomedical-image-processing
• +2 more

347.neslib / FastMath

Fast Math Library for Delphi

• delphi-rtl
• delphi-fastmath
• fastmath
• overloaded-operators
• vectors
• matrix
• +2 more

348.snap-stanford / SATURN

The repository host gives no description.

349.sustainable-processes / summit

Optimising chemical reactions using machine learning

• chemistry
• machine-learning
• optimization
• bayesian-optimization
• neural-networks
• drug-discovery
• +4 more

350.peizhenbai / DrugBAN

Interpretable bilinear attention network with domain adaptation improves drug-target prediction.

351.gistrec / geo-utils-cpp

Tiny header-only C++17 library for lat/lng geometry: distance, bearing, area, point-in-polygon and path proximity

• cpp
• geometry
• geospatial
• gis
• gps
• haversine
• +9 more

352.google / makaniArchived

Makani was a project to develop a commercial-scale airborne wind turbine, culminating in a flight test of the Makani M600 off the coast of Norway. All Makani software has now been open-sourced. This repository contains the working Makani flight simulator, controller (autopilot), visualizer, and command center flight monitoring tools. Additionally, almost all avionics firmware is also included, albeit potentially not in a buildable state, due to the removal of some third-party proprietary code. We hope that this code will be inspirational and useful to the kite-based windpower and wider communities.

• makani
• wind
• renewable-energy
• energy-kites
• wind-power

353.kzampog / cilantro

A lean C++ library for working with point cloud data

• point-cloud
• icp
• ransac
• convex-hull
• 3d-visualization
• k-means
• +14 more

354.awslabs / dgl-lifesci

Python package for graph neural networks in chemistry and biology

• deep-learning
• graph-neural-networks
• dgl
• cheminformatics
• bioinformatics
• geometric-deep-learning
• +2 more

355.songlab-cal / tape

Tasks Assessing Protein Embeddings (TAPE), a set of five biologically relevant semi-supervised learning tasks spread across different domains of protein biology.

• deep-learning
• protein-sequences
• protein-structure
• semi-supervised-learning
• benchmark
• language-modeling
• +2 more

356.rpng / kalibr_allanArchived

IMU Allan standard deviation charts for use with Kalibr and inertial kalman filters.

• imu
• allan-variance
• kalibr
• calibration
• imu-noise
• noise-values
• +1 more

357.stillwater-sc / universal

Large collection of number systems providing custom arithmetic for mixed-precision algorithm development and optimization for AI, Machine Learning, Computer Vision, Signal Processing, CAE, EDA, control, optimization, estimation, and approximation.

• arithmetic
• integer-arithmetic
• fixed-point-arithmetic
• rational-arithmetic
• floating-point-arithmetic
• posit-arithmetic
• +13 more

358.v923z / micropython-ulab

a numpy-like fast vector module for micropython, circuitpython, and their derivatives

• micropython-ulab
• numpy
• micropython
• module
• circuitpython
• openmv
• +5 more

359.haddocking / pdb-tools

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

• python
• protein
• pdb
• bioinformatics
• structural-biology
• structural-bioinformatics
• +2 more

360.PathologyFoundation / plip

Pathology Language and Image Pre-Training (PLIP) is the first vision and language foundation model for Pathology AI (Nature Medicine). PLIP is a large-scale pre-trained model that can be used to extract visual and language features from pathology images and text description. The model is a fine-tuned version of the original CLIP model.

• artificial-intelligence
• clip
• pathology
• vision-and-language

361.TencentAILabHealthcare / scBERT

The repository host gives no description.

362.lemire / fastmod

A C/C++ header file for fast 32-bit division remainders (and divisibility tests) on 64-bit hardware.

• performance

363.DmitriBogdanov / UTL

Collection of self-contained header-only libraries for C++17

• async
• json
• logger
• math
• parallel
• prng
• +12 more

364.lukaszcz / coqhammer

CoqHammer: An Automated Reasoning Hammer Tool for Rocq - Proof Automation for Dependent Type Theory

• coq
• hammer
• automation
• proof-search
• theorem-prover
• verification
• +3 more

365.mojaie / MolecularGraph.jl

Graph-based molecule modeling toolkit for cheminformatics

• cheminformatics
• molecular-modeling
• chemistry
• toolkit
• julia
• julia-language
• +3 more

366.akrherz / iem

Code that makes the Iowa Environmental Mesonet run, or run into the ground.

• weather
• mesonet
• iowa

367.TUMFTM / sim_vehicle_dynamics

TUM Roborace Team Software Stack - Vehicle Simulation

368.ebi-webcomponents / nightingale

Data visualisation web components for the life sciences.

• biohackeu21
• bioinformatics
• visualization
• webcomponents
• biohackeu22

369.bowang-lab / scGPT-spatial

The repository host gives no description.

370.HALFpipe / HALFpipe

ENIGMA HALFpipe is a user-friendly software that facilitates reproducible analysis of fMRI data

• neuroimaging
• reproducibility
• pipeline
• meta-analysis
• bids
• fmri

371.uncomplicate / neanderthal

Fast Clojure Matrix Library

• clojure
• clojure-library
• matrix
• gpu
• gpu-computing
• gpgpu
• +10 more

372.johnmcfarlane / cnl

A Compositional Numeric Library for C++

• cmake
• cpp
• fixed-point
• safe
• precision
• embedded
• +4 more

373.rawify / Fraction.js

The RAW rational numbers library written in JavaScript

• fraction
• javascript
• math
• rational-numbers
• numbers

374.BMIRDS / deepslide

Code for the Nature Scientific Reports paper "Pathologist-level classification of histologic patterns on resected lung adenocarcinoma slides with deep neural networks." A sliding window framework for classification of high resolution whole-slide images, often microscopy or histopathology images.

• histopathology-images
• microscopy
• sliding-windows
• medical-image-analysis
• resnet
• wsi
• +3 more

375.pschwllr / MolecularTransformer

The repository host gives no description.

376.pydy / pydy

Multibody dynamics tool kit.

• python
• dynamics
• physics
• simulation

377.mahmoodlab / PORPOISE

Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell

• histology
• wsi-images
• pan-cancer-analysis
• genomics
• mahmoodlab

378.txWang / MOGONET

MOGONET (Multi-Omics Graph cOnvolutional NETworks) is a novel multi-omics data integrative analysis framework for classification tasks in biomedical applications.

379.cytomining / pycytominer

Python package for image-based profiling

• cytominer
• microscopy
• morphological-profiling
• python
• cellprofiler
• image-analysis
• +1 more

380.uds-psl / coq-library-undecidability

A library of mechanised undecidability proofs in the Coq proof assistant.

• coq

381.doyle-lab-ucla / auto-qchem

Auto-QChem is an automated workflow for the generation and storage of DFT calculations for organic molecules.

• cheminformatics
• dft-calculations
• automation
• feature
• machine-learning

382.xCompass-AI / GeneCompass

GeneCompass

383.OmicsML / CellPLM

Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.

384.labomics / midas

PyTorch implementation of the MIDAS algorithm for single-cell multimodal data integration (Nature Biotechnology 2024).

• deep-generative-model
• deep-learning
• single-cell-data-integration
• single-cell-multiomics

385.cafferychen777 / flashdeconv

Fast, deterministic cell-type deconvolution for million-bin spatial transcriptomics

• bioinformatics
• cell-type-deconvolution
• computational-biology
• deconvolution
• python
• scanpy
• +3 more

386.HIPS / Spearmint

Spearmint Bayesian optimization codebase

387.glumpy / glumpy

Python+Numpy+OpenGL: fast, scalable and beautiful scientific visualization

• python
• numpy
• opengl
• engine
• rendering
• game
• +2 more

388.bcbio / bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

389.madelynnblue / go-dsp

Digital Signal Processing for Go

390.ZacharyPatten / Towel

Throw in the towel.

• dotnet
• towel
• csharp
• library
• data-structures
• mathematics
• +12 more

391.plotly / dash-cytoscape

Interactive network visualization in Python and Dash, powered by Cytoscape.js

• plotly-dash
• plotly
• dash
• cytoscape
• cytoscapejs
• network-visualization
• +6 more

392.Project-Platypus / Platypus

A Free and Open Source Python Library for Multiobjective Optimization

• optimization
• multiobjective
• evolutionary
• algorithm
• genetic
• python

393.xiaoyeli / superlu

Supernodal sparse direct solver. https://portal.nersc.gov/project/sparse/superlu/

394.math-comp / analysis

Mathematical Components compliant Analysis Library

• rocq
• analysis
• coq
• mathcomp
• ssreflect

395.Kcnarf / d3-voronoi-treemap

D3 plugin which computes a treemap based on a Voronoi tesselation

• d3js
• dataviz
• part-to-whole

396.hachmannlab / chemml

ChemML is a machine learning and informatics program suite for the chemical and materials sciences.

• quantum-mechanics
• materials-informatics
• data-science
• machine-learning
• drug-discovery
• deep-learning

397.devalab / molgpt

The repository host gives no description.

398.mrkrd / cochlea

Inner ear models for Python

• python
• cochlea
• inner-ear
• model
• auditory
• computational-neuroscience
• +4 more

399.cornerstonejs / cornerstone

[Deprecated] Use Cornerstone3D Instead https://cornerstonejs.org/

• javascript
• cornerstone
• dicom
• medical-imaging
• nci-itcr

400.dib-lab / khmer

In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

• dna
• k-mer
• python
• bloom-filter
• count-min-sketch
• graph-traversal
• +1 more