bioinformatics
Repositories (1478)
List of Computer Science courses with video lectures.
Turn any AI agent into an AI Scientist. The #1 Agent Skills library for science, used by 190,000+ scientists worldwide. 165 ready-to-use validated ski...
Data Apps & Dashboards for Python. No JavaScript Required.
Official git repository for Biopython (originally converted from CVS)
A curated list of awesome Bioinformatics libraries and software.
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
A DSL for data-driven computational pipelines
Making Protein folding accessible to all!
Single-cell analysis in Python. Scales to >100M cells.
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
Open Science is an open-source, local-first, model-agnostic AI research workbench with scientific agents for reproducible research and discovery.
A versatile pairwise aligner for genomic and spliced nucleotide sequences
MMseqs2: ultra fast and sensitive search and clustering suite
Official code repository for GATK versions 4 and up
A full spaCy pipeline and models for scientific/biomedical documents.
A curated list of awesome AI tools, libraries, papers, datasets, and frameworks that accelerate scientific discovery — from physics and chemistry to b...
Conda recipes for the bioconda channel.
Data intensive science for everyone.
Hundreds of agent skills for medical research, including protocol design, data analysis, evidence insights, and academic writing.
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
Toolkit for processing sequences in FASTA/Q formats
Aggregate results from bioinformatics analyses across many samples into a single report.
Unix, R and python tools for genomics and data science
Foldseek enables fast and sensitive comparisons of large structure sets.
Therapeutics Commons (TDC): Multimodal Foundation for Therapeutic Science
scikit-bio: a community-driven Python library for bioinformatics, providing versatile data structures, algorithms and educational resources.
A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
Protein Graph Library
Pytorch Repo for DeepGCNs (ICCV'2019 Oral, TPAMI'2021), DeeperGCN (arXiv'2020) and GNN1000(ICML'2021): https://www.deepgcns.org
A Deep Learning Toolkit for DTI, Drug Property, PPI, DDI, Protein Function Prediction (Bioinformatics)
A cross-platform, efficient and practical CSV/TSV toolkit in Golang
A cross-platform command-line tool for executing jobs in parallel
🦖 ClawBio - The first bioinformatics-native AI agent skill library. Local-first. Reproducible. Open. Free.
Circular visualization in Python (Circos Plot, Chord Diagram, Radar Chart)
Robust, flexible and resource-efficient pipelines using Go and the commandline
A plotly.js React component from Plotly 📈
Scripts to download genomes from the NCBI FTP servers
An AI co-scientist running on your desktop. Claude Science but better.
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environme...
Cloud-native genomic dataframes and batch computing
Open-source, local-first desktop AI research workbench for scientific computing with Python/R, MCP bioinformatics tools, SSH/WSL/GPU runtimes, and Ope...
ADAM is a genomics analysis platform with specialized file formats built using Apache Avro, Apache Spark, and Apache Parquet. Apache 2 licensed.
A comprehensive tutorial about GWAS and PRS
A comprehensive library for computational molecular biology
C library for high-throughput sequencing data formats
Empower Large Language Models (LLM) using Knowledge Graph based Retrieval-Augmented Generation (KG-RAG) for knowledge intensive tasks
Python library to facilitate genome assembly, annotation, and comparative genomics
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment