FMAP: Functional Mapping and Analysis Pipeline for metagenomics and metatranscriptomics studies.

ABSTRACT:

Background

Given the lack of a complete and comprehensive library of microbial reference genomes, determining the functional profile of diverse microbial communities is challenging. The available functional analysis pipelines lack several key features: (i) an integrated alignment tool, (ii) operon-level analysis, and (iii) the ability to process large datasets.

Results

Here we introduce our open-sourced, stand-alone functional analysis pipeline for analyzing whole metagenomic and metatranscriptomic sequencing data, FMAP (Functional Mapping and Analysis Pipeline). FMAP performs alignment, gene family abundance calculations, and statistical analysis (three levels of analyses are provided: differentially-abundant genes, operons and pathways). The resulting output can be easily

SUBMITTER: Kim J 

PROVIDER: S-EPMC5057277 | biostudies-literature | 2016 Oct

REPOSITORIES: biostudies-literature