PT - JOURNAL ARTICLE AU - Shaman Narayanasamy AU - Yohan Jarosz AU - Emilie E.L. Muller AU - Cédric C. Laczny AU - Malte Herold AU - Anne Kaysen AU - Anna Heintz-Buschart AU - Nicolás Pinel AU - Patrick May AU - Paul Wilmes TI - IMP: a pipeline for reproducible integrated metagenomic and metatranscriptomic analyses AID - 10.1101/039263 DP - 2016 Jan 01 TA - bioRxiv PG - 039263 4099 - http://biorxiv.org/content/early/2016/02/10/039263.short 4100 - http://biorxiv.org/content/early/2016/02/10/039263.full AB - We present IMP, an automated pipeline for reproducible integrated analyses of coupled metagenomic and metatranscriptomic data. IMP incorporates preprocessing, iterative co-assembly of metagenomic and metatranscriptomic data, analyses of microbial community structure and function as well as genomic signature-based visualizations. Complementary use of metagenomic and metatranscriptomic data improves assembly quality and enables the estimation of both population abundance and community activity while allowing the recovery and analysis of potentially important components, such as RNA viruses. IMP is containerized using Docker which ensures reproducibility. IMP is available at http://r3lab.uni.lu/web/imp/.NGSnext-generation sequencingContigscontiguous sequence(s)cDNAcomplementary-DNAMGMetagenomicMTMetatranscriptomicMPMetaproteome/metaproteomicSNPssingle nucleotide polymorphismsINDELsinsertions and deletionsrRNAribosomal RNAIMPIntegrated Meta-omic PipelineSMSimulated mockHFHuman fecalWWWastewaterbpbase pairKbkilo baseKEGGKyoto Encyclopedia of Genes and GenomesVCFVariant call formatSRASequence read archiveNCBINational Center for Biotechnology Information