csi-ssu
CSI SSU screening tool for genomic and transcriptomic data
CSI SSU screening tool for genomic and transcriptomic data
To install this package, run one of the following:
A command-line tool for screening SSU (Small Subunit ribosomal RNA) sequences in genomic and transcriptomic data. This tool helps identify and classify SSU sequences using phylogenetic placement in SSU reference packages built from PR2 via pplacer.
Features include automated SSU screening using BLAST, MAFFT, and pplacer, phylogenetic placement for contamination screening and approximate taxonomic classification, and a command-line interface for easy integration into pipelines.
Summary
CSI SSU screening tool for genomic and transcriptomic data
Last Updated
Mar 24, 2026 at 00:15
License
MIT
Total Downloads
121
Version Downloads
28
Supported Platforms
GitHub Repository
https://github.com/AlexTiceLab/CSI-SSU