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Bioinformatics & Genomics

Tools and pipelines for analyzing DNA and RNA sequencing data, including variant calling, alignment, and genome interpretation using machine learning.

11 projects

See methodology for ranking rules; order uses public GitHub metrics within this scenario.

1–11 of 11

Rank Project Stars Forks
1 deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

3.8K 799
2 scanpy

Single-cell analysis in Python. Scales to >100M cells.

2.5K 766
3 chemprop

Message Passing Neural Networks for Molecule Property Prediction

2.4K 757
4 Assemblies-of-putative-SARS-CoV2-spike-encoding-mRNA-sequences-for-vaccines-BNT-162b2-and-mRNA-1273

Provides experimental sequence data for COVID-19 vaccine mRNAs to facilitate identification of vaccine-derived reads in RNA-seq studies.

3.4K 474
5 scvi-tools

Deep probabilistic analysis of single-cell and spatial omics data

1.7K 471
6 alphafold3-pytorch

Implementation of Alphafold 3 from Google Deepmind in Pytorch

1.7K 229
7 CLAM

Open source tools for computational pathology - Nature BME

1.7K 517
8 ClawBio

🦖 ClawBio - The first bioinformatics-native AI agent skill library. Local-first. Reproducible. Open. Free.

1.1K 256
9 bioSkills

a set of SKILLS.md for doing bioinformatics with agents like claude code

1.2K 214
10 TDC

Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science

1.3K 223
11 alphafold2

To eventually become an unofficial Pytorch implementation / replication of Alphafold2, as details of the architecture get released

1.6K 264