sourmash v4
sourmash v4: A multitool to quickly search, compare, and analyze genomic and metagenomic data sets - Published in JOSS (2024)
VCFPy
VCFPy: a Python 3 library with good support for both reading and writing VCF - Published in JOSS (2016)
AltamISA
AltamISA: a Python API for ISA-Tab files - Published in JOSS (2019)
integron_finder
Bioinformatics tool to find integrons in bacterial genomes
TreeSearch
R package for phylogenetic tree search under inapplicable-corrected parsimony and custom optimality criteria
Quartet
R package to calculate the similarity of two trees based on the number of shared four-taxon subtrees (or splits)
BioCor
Package to calculate functional similarity between genes https://biocor.llrs.dev
grepq
grepq: A Rust application that quickly filters FASTQ files by matching sequences to a set of regular expressions - Published in JOSS (2025)
gtexr
gtexr: A convenient R interface to the Genotype-Tissue Expression (GTEx) Portal API - Published in JOSS (2025)