Trending repositories

301.boostorg / multiprecision

Boost.Multiprecision

302.rocq-community / fourcolor

Formal proof of the Four Color Theorem [maintainer=@ybertot]

• coq
• ssreflect
• mathcomp
• four-color-theorem
• coq-ci

303.GeomScale / volesti

Practical volume computation and sampling in high dimensions

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

304.brainglobe / brainglobe-atlasapi

A Python interface to access neuroanatomical atlases

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

305.snap-stanford / SATURN

The repository host gives no description.

306.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

307.TUMFTM / sim_vehicle_dynamics

TUM Roborace Team Software Stack - Vehicle Simulation

308.J-SNACKKB / FLIP

A collection of tasks to probe the effectiveness of protein sequence representations in modeling aspects of protein design

• protein
• protein-sequences
• protein-design
• representation-learning
• protein-fitness-prediction
• protein-function-prediction

309.pydata / bottleneck

Fast NumPy array functions written in C

• c
• python
• numpy
• fast
• c-extension

310.kzampog / cilantro

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

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

311.YuLab-SMU / ggtree

:christmas_tree:Visualization and annotation of phylogenetic trees

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

312.attaswift / BigInt

Arbitrary-precision arithmetic in pure Swift

313.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

314.hms-dbmi / CHIEF

Clinical Histopathology Imaging Evaluation Foundation Model

315.johnmcfarlane / cnl

A Compositional Numeric Library for C++

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

316.chebfun / chebfun

Chebfun: numerical computing with functions.

317.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

318.bjodah / chempy

⚗ A package useful for chemistry written in Python

• chemistry
• physical-chemistry
• chemical-kinetics
• chemical-formulas
• chemical-reaction-model
• python
• +1 more

319.HeliXonProtein / OmegaFold

OmegaFold Release Code

320.vlang / vsl

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

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

321.TencentAILabHealthcare / scBERT

The repository host gives no description.

322.yiqunchen / GenePT

The repository host gives no description.

323.thinng / GraphDTA

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

324.chembl / ChEMBL_Structure_Pipeline

ChEMBL database structure pipelines

325.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

326.reaktoro / reaktoro

a unified framework for modeling chemically reactive systems

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

327.hpddm / hpddm

A framework for high-performance domain decomposition methods.

• c-plus-plus
• linear-algebra
• python
• fortran
• c
• freefem
• +4 more

328.sustainable-processes / summit

Optimising chemical reactions using machine learning

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

329.peizhenbai / DrugBAN

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

330.OmicsML / CellPLM

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

331.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

332.tensorflow / tfjs-coreArchived

WebGL-accelerated ML // linear algebra // automatic differentiation for JavaScript.

• deep-learning
• typescript
• webgl
• javascript
• machine-learning
• neural-network
• +2 more

333.bigdatagenomics / adam

ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.

• spark
• big-data
• bioinformatics
• genomics
• parquet
• avro
• +4 more

334.qhull / qhull

Qhull development for www.qhull.org -- Qhull 2020.2 (8.1-alpha1) at https://github.com/qhull/qhull/wiki

• qhull
• computational-geometry
• convex-hull
• delaunay-triangulation
• voronoi-diagram
• halfspace-intersection
• +3 more

335.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

336.bebop / poly

A Go package for engineering organisms.

• synthetic-biology
• synbio
• genetic-engineering
• molecular-biology
• bioengineering
• computational-biology
• +14 more

337.salesforce / progen

Official release of the ProGen models

• language-model
• protein
• generative-model

338.PaddlePaddle / Quantum

The repository host gives no description.

339.v923z / micropython-ulab

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

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

340.calico / basenji

Sequential regulatory activity predictions with deep convolutional neural networks.

341.haddocking / pdb-tools

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

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

342.rafat / wavelib

C Implementation of 1D and 2D Wavelet Transforms (DWT,SWT and MODWT) along with 1D Wavelet packet Transform and 1D Continuous Wavelet Transform.

• wavelets
• dwt
• continuous-wavelet-transform
• wavelet-packet-trees
• c
• cpp

343.Tronald / CoordinateSharp

A library designed to ease geographic coordinate format conversions, and determine sun/moon information in C#

• moon
• coordinates
• longitude
• latitude
• mgrs
• utm
• +13 more

344.lemire / fastmod

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

• performance

345.kuleshov-group / caduceus

Bi-Directional Equivariant Long-Range DNA Sequence Modeling

346.govalues / decimal

Correctly rounded decimals for Go

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

347.gecko0307 / dlib

Allocators, I/O streams, math, geometry, image and audio processing for D

• utility-library
• dlang
• linear-algebra
• computational-geometry
• image-processing
• audio-processing
• +8 more

348.mojaie / MolecularGraph.jl

Graph-based molecule modeling toolkit for cheminformatics

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

349.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

350.Kcnarf / d3-voronoi-treemap

D3 plugin which computes a treemap based on a Voronoi tesselation

• d3js
• dataviz
• part-to-whole

351.dockstring / dockstring

A Python package for molecular docking with an extensive, highly-curated dataset and a set of realistic benchmark tasks for drug discovery.

352.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

353.uds-psl / coq-library-undecidability

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

• coq

354.morphonets / SNT

The framework for quantification of neuronal anatomy

• neuroscience
• neuroanatomy-toolbox
• imagej
• imagej2
• scijava
• neurons
• +3 more

355.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

356.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

357.glumpy / glumpy

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

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

358.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

359.davidmoten / rtree

Immutable in-memory R-tree and R*-tree implementations in Java with reactive api

360.uncomplicate / neanderthal

Fast Clojure Matrix Library

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

361.madelynnblue / go-dsp

Digital Signal Processing for Go

362.MaxHalford / eaopt

:four_leaf_clover: Evolutionary optimization library for Go (genetic algorithm, partical swarm optimization, differential evolution)

• go
• optimization
• parallel
• machine-learning
• genetic-algorithm
• speciation
• +5 more

363.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

364.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

365.uwdb / Cosette

Cosette is an automated SQL solver.

• rosette
• coq
• sql
• database
• verification

366.yt-project / yt

Main yt repository

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

367.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

368.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

369.fastlib / fCWT

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

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

370.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

371.excessive / cpml

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

• math

372.DmitriBogdanov / UTL

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

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

373.xiaoyeli / superlu

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

374.ECSIM / opem

OPEM (Open Source PEM Fuel Cell Simulation Tool)

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

375.PytorchConnectomics / pytorch_connectomics

PyTorch Connectomics: segmentation toolbox for EM connectomics

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

376.neslib / FastMath

Fast Math Library for Delphi

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

377.luoyunan / DTINet

A Network Integration Approach for Drug-Target Interaction Prediction

378.JChemPaint / jchempaint

Chemical 2D structure editor application/applet based on the Chemistry Development Kit

• blueobelisk
• java
• chemistry

379.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

380.xCompass-AI / GeneCompass

GeneCompass

381.FunctionLab / sei-framework

code to run sei and obtain sei and sequence class predictions

382.erinmaus / slick

slick is a simple to use polygon collision library inspired by bump.lua

383.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

384.cafferychen777 / ChatSpatial

MCP server for spatial transcriptomics analysis through natural language interfaces.

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

385.HIPS / Spearmint

Spearmint Bayesian optimization codebase

386.thi-ng / geom

2D/3D geometry toolkit for Clojure/Clojurescript

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

387.plotly / dash-cytoscape

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

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

388.meshpro / optimesh

:spider_web: Mesh optimization, mesh smoothing.

• python
• pypi
• mathematics
• physics
• engineering
• fem
• +3 more

389.microsoft / QuantumLibrariesArchived

Q# libraries for the Quantum Development Kit

• qsharp
• qdk
• quantum
• quantum-development-kit
• quantum-computing
• hacktoberfest

390.zsdonghao / u-net-brain-tumor

U-Net Brain Tumor Segmentation

• tensorflow
• tensorlayer
• unet
• medical-imaging

391.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

392.MenoData / Time4J

Advanced date, time and interval library for Java with sun/moon-astronomy and calendars like Chinese, Coptic, Ethiopian, French Republican, Hebrew, Hijri, Historic Christian, Indian National, Japanese, Julian, Korean, Minguo, Persian, Thai, Vietnamese

• java
• time4j
• calendar
• interval
• duration
• sun
• +2 more

393.pydy / pydy

Multibody dynamics tool kit.

• python
• dynamics
• physics
• simulation

394.blueqat / blueqatSDK

Quantum Computer Library for Everyone

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

395.Shopify / measured

Encapsulate measurements and their units in Ruby and Ruby on Rails.

396.adalca / neurite

Neural networks toolbox focused on medical image analysis

• python
• keras
• convolutional-neural-networks
• brain
• medical-imaging
• medical-image-computing
• +1 more

397.isayev / ReLeaSE

Deep Reinforcement Learning for de-novo Drug Design

• deeplearning
• reinforcement-learning
• cheminformatics
• molecular-modeling
• drug-discovery
• qsar

398.wildmeshing / TriWild

TriWild: Robust Triangulation with Curve Constraints

• traingulation
• meshing
• geometry-processing

399.mahmoodlab / PORPOISE

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

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

400.math-comp / analysis

Mathematical Components compliant Analysis Library

• rocq
• analysis
• coq
• mathcomp
• ssreflect