RRAP: RPKM Recruitment Analysis Pipeline
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Conner Y Kojima1, Eric W Getz1, J Cameron Thrash1
1Department of Biological Sciences, University of Southern California, Los Angeles, California, USA.
Microbiology Resource Announcements
|August 22, 2022
Abstract:
A common method for quantifying microbial abundances in situ is through metagenomic read recruitment to genomes and normalizing read counts as reads per kilobase (of genome) per million (bases of recruited sequences) (RPKM). We created RRAP (RPKM Recruitment Analysis Pipeline), a wrapper that automates this process using Bowtie2 and SAMtools.
