Find open-source science resources
A directory of tools, AI models, datasets, and research resources for biotech, bioinformatics, and other scientific fields. Aggregated from curated GitHub awesome-lists, HuggingFace, bio.tools, Bioconductor, and more.
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31 of 7,078 resources
Scalable toolkit for analyzing single-cell gene expression data, including preprocessing, visualization, clustering, and trajectory inference.
Python library for blazing-fast genomic interval operations and genomic file formats I/O on Polars DataFrames
Freely available tools for biological computing in Python, with included cookbook, packaging and thorough documentation. Part of the [Open Bioinformatics Foundation](http://open-bio.org/). Contains the very useful [Entrez](https://biopython.org/DIST/docs/api/Bio.Entrez-module.html) package for API access to the NCBI databases.
Python wrapper for [bedtools](https://github.com/arq5x/bedtools).
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
Tools for adding mutations to existing `.bam` files, used for testing mutation callers.
Utilities for working with CSV/Tab-delimited files.
Access to Biological Web Services from Python.
GFF and GTF file manipulation and interconversion.
Deep learning-based variant caller
FASTQ and SAM quality control using Python.
Batteries included genomic analysis pipeline for variant and RNA-Seq analysis, structural variant calling, annotation, and prediction.
Resources on ChIP-seq data which include papers, methods, links to software, and analysis.
Partial-Order Alignment for fast alignment and consensus of multiple homologous sequences.
file format conversion in Biopython in a convenient way.
Write-once-read-many table for large datasets.
Easily submitting PBS jobs with script template. Multiple input files supported.
Go Get Data; A command line interface for obtaining genomic data.
[@crazyhottommy](https://github.com/crazyhottommy)'s notes on various steps and considerations when doing RNA-seq analysis.
Computation Pipeline library for python widely used in science and bioinformatics.
Easy-to-use DNA sequence visualization tool that turns FASTA files into browser-based visualizations.
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data.
A port of [pyVCF](https://github.com/jamescasbon/PyVCF) using Cython for speed.