MetaCRAM: an integrated pipeline for metagenomic taxonomy identification and compression.

ABSTRACT:

Background

Metagenomics is a genomics research discipline devoted to the study of microbial communities in environmental samples and human and animal organs and tissues. Sequenced metagenomic samples usually comprise reads from a large number of different bacterial communities and hence tend to result in large file sizes, typically ranging between 1-10 GB. This leads to challenges in analyzing, transferring and storing metagenomic data. In order to overcome these data processing issues, we introduce MetaCRAM, the first de novo, parallelized software suite specialized for FASTA and FASTQ format metagenomic read processing and lossless compression.

Results

MetaCRAM integrates algorithms for taxonomy identification and assembly, and introduces parallel execution methods; furthe

SUBMITTER: Kim M 

PROVIDER: S-EPMC4759986 | biostudies-literature | 2016 Feb

REPOSITORIES: biostudies-literature