SqueezeMeta, A Highly Portable, Fully Automatic Metagenomic Analysis Pipeline.

ABSTRACT: The improvement of sequencing technologies has facilitated generalization of metagenomic sequencing, which has become a standard procedure for analyzing the structure and functionality of microbiomes. Bioinformatic analysis of sequencing results poses a challenge because it involves many different complex steps. SqueezeMeta is a fully automatic pipeline for metagenomics/metatranscriptomics, covering all steps of the analysis. SqueezeMeta includes multi-metagenome support that enables co-assembly of related metagenomes and retrieval of individual genomes via binning procedures. SqueezeMeta features several unique characteristics: co-assembly procedure or co-assembly of unlimited number of metagenomes via merging of individual assembled metagenomes, both with read mapping for estimation of t

SUBMITTER: Tamames J 

PROVIDER: S-EPMC6353838 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature