GFF and GTF file manipulation and interconversion
MIT License
Add biological annotations to variants in a given VCF file.
Reliable, scalable, efficient demultiplexing for single-cell RNA sequencing
Miscellaneous tools for genomics
Indexes genomes using SNVs, MLST, or kmers for rapid querying, clustering, and visualization.
Automated Multi-Locus Sequence Analysis phylogenetic tree construction software
Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
NOTE: see new version at https://github.com/daler/gffutils.
BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
Open source code for AlphaFold.
genes and genomes at your fingertips
Python library for simple HEC-DSS functions
Namespace encoding hierarchical relationships between proteins, protein families, and protein com...
Rapid determination of appropriate reference genomes.