Repository Index

A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)

• drug-repurposing
• deep-learning
• drug-target-interactions
• toolkit

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

• point-cloud
• icp
• ransac
• convex-hull

a lean linear math library, aimed at graphics programming. Supports vec3, vec4, mat4x4 and quaternions

WebGL accelerated JavaScript molecular graphics library

• molecular-graphics
• molecular-modeling
• computational-biology
• computational-chemistry

2D/3D geometry toolkit for Clojure/Clojurescript

• geometry
• visualization
• mesh-generation
• opengl

3D medical imaging reconstruction software

• dicom
• dicom-viewer
• magnetic-resonance-imaging
• medical-image-processing

DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome

• kmer
• dnabert-model
• kmer-format
• gpu

Robust Tetrahedral Meshing in the Wild.

• geometry-processing
• tetrahedral-meshing
• surface-repair
• 3d-triangulation

:1234: Bits, bytes and general-purpose calculator

• storage
• storage-unit-converter
• command-line
• standalone

The Point Processing Toolkit (pptk) is a Python package for visualizing and processing 2-d/3-d point clouds.

• pointclouds
• 3-d
• visualization
• lidar

A pure Go 3D math library.

2D/3D simplicial mesh generator interface for Python (Triangle, TetGen, gmsh)

• python
• mesh-generation
• scientific-computing
• triangle

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

• micropython-ulab
• numpy
• micropython
• module

A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV

• bioinformatics
• taxonomy
• cross-platform
• lineage

A thin layer of graphic data types

• graphics-library
• vector
• transformations
• matrix

Exascale multiphase flow solver — 2025 Gordon Bell Prize Finalist | 200T grid points on 43K+ GPUs

• gpu
• exascale
• cfd
• fortran

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

• math

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

• performance

The official implementation of 3D Equivariant Diffusion for Target-Aware Molecule Generation and Affinity Prediction (ICLR 2023)

• ai-for-science
• diffusion-models
• drug-design
• equivariant-networks

A performance oriented 2D/3D math package for Go

Native R and Python sample-deletion robustness for omics: candidate certificates, minimum deletion bounds, Bioconductor model refits and donor-level pseudobulk

• bioinformatics
• exact-optimization
• metabolomics
• paired-data

Voronoi / Delaunay tessellations on the sphere

• voronoi
• d3js
• d3
• geospatial

Correctly rounded decimals for Go

• decimal
• financial
• floating-point
• general-decimal-arithmetic

MolTrans: Molecular Interaction Transformer for Drug Target Interaction Prediction (Bioinformatics)