#bioinformatics (30 Repositories)
Ranked open-source repositories tagged with #bioinformatics, scored by pull request acceptance likelihood and maintainer engagement velocity.
76.8%
16.1h
30 repositories tagged #bioinformatics
aipoch/open-science
The open-source AI research workbench for scientific research and agent workflows. Local-first, model-agnostic desktop app with extensible skills, MCP tools and connectors, Python/R execution and traceable artifacts for reproducible research on macOS, Windows and Linux.
merenlab/anvio
An analysis and visualization platform for 'omics data
yuanzhw/AI-bioworkflow
Auditable bioinformatics workflow compiler: Catalog-bound planning, Workflow IR, and validated WDL 1.0.
helicalAI/helical
A framework for state-of-the-art pre-trained bio foundation models on genomics and transcriptomics modalities.
GuyTeichman/RNAlysis
Analyze your RNA sequencing data without writing a single line of code
xuzhougeng/wisp-science
Open-source, local-first desktop AI research workbench for scientific computing with Python/R, MCP bioinformatics tools, SSH/WSL/GPU runtimes, and OpenAI/Anthropic models.
MannLabs/alphadia
modular & open DIA search
Marsilea-viz/marsilea
Declarative creation of composable visualization for Python (Complex heatmap, Upset plot, Oncoprint and more~)
evo-design/proto-tools
A universal infrastructure layer for generative biology
omicverse/omicverse
A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
FelixKrueger/Bismark
A tool to map bisulfite converted sequence reads and determine cytosine methylation states
stjude-rust-labs/sprocket
A bioinformatics workflow engine built on top of the Workflow Description Language (WDL).
scverse/rapids-singlecell
rapids-singlecell: GPU-accelerated framework for scRNA analysis
samtools/htslib
C library for high-throughput sequencing data formats
galaxyproject/galaxy
Data intensive science for everyone.
ClawBio/ClawBio
🦖 ClawBio - The first bioinformatics-native AI agent skill library. Local-first. Reproducible. Open. Free.
aristoteleo/PantheonOS
A general, evolvable, and distributed agent framework & harness for data science.
COMBINE-lab/salmon
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
scverse/anndata
Annotated data.
cogent3/cogent3
Comparative Genomics Toolkit 3
nextflow-io/nextflow
A workflow language for data-driven computational pipelines
scverse/pertpy
Single-cell perturbation analysis
bioconda/bioconda-recipes
Conda recipes for the bioconda channel.
hail-is/hail
Cloud-native genomic dataframes and batch computing
StaPH-B/docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
MultiQC/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
scikit-bio/scikit-bio
scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
broadinstitute/gatk
Official code repository for GATK versions 4 and up
tanghaibao/jcvi
Python library to facilitate genome assembly, annotation, and comparative genomics
brentp/somalier
fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"