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A common method for quantifying microbial abundances 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.
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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9476942 | PMC |
| http://dx.doi.org/10.1128/mra.00644-22 | DOI Listing |
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RRAP: RPKM Recruitment Analysis Pipeline.
Microbiol Resour Announc
September 2022
Department of Biological Sciences, University of Southern California, Los Angeles, California, USA.
A common method for quantifying microbial abundances 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.
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