RRAP: RPKM Recruitment Analysis Pipeline

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 automa...

Descripción completa

Detalles Bibliográficos
Autores principales: Kojima, Conner Y., Getz, Eric W., Thrash, J. Cameron
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Society for Microbiology 2022
Materias:
Databases and Software
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9476942/
https://www.ncbi.nlm.nih.gov/pubmed/35993706
http://dx.doi.org/10.1128/mra.00644-22
Descripción
Sumario: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.

Ejemplares similares