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Title: MerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data

Abstract

MerCat is a parallel, highly scalable and modular property software package for robust analysis of features in next-generation sequencing data. MerCat inputs include assembled contigs and raw sequence reads from any platform resulting in feature abundance counts tables. MerCat allows for direct analysis of data properties without reference sequence database dependency commonly used by search tools such as BLAST and/or DIAMOND for compositional analysis of whole community shotgun sequencing (e.g. metagenomes and metatranscriptomes).

Authors:
; ; ; ; ; ;
Publication Date:
Research Org.:
Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1356502
Report Number(s):
PNNL-SA-124860
Journal ID: ISSN 2167-9843
DOE Contract Number:  
AC05-76RL01830
Resource Type:
Journal Article
Resource Relation:
Journal Name: PeerJ Preprints; Journal Volume: 5
Country of Publication:
United States
Language:
English
Subject:
metagenomics; metatranscriptomics; metabolomics; metaproteomics

Citation Formats

White, Richard A., Panyala, Ajay R., Glass, Kevin A., Colby, Sean M., Glaesemann, Kurt R., Jansson, Georg C., and Jansson, Janet K. MerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data. United States: N. p., 2017. Web. doi:10.7287/peerj.preprints.2825v1.
White, Richard A., Panyala, Ajay R., Glass, Kevin A., Colby, Sean M., Glaesemann, Kurt R., Jansson, Georg C., & Jansson, Janet K. MerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data. United States. doi:10.7287/peerj.preprints.2825v1.
White, Richard A., Panyala, Ajay R., Glass, Kevin A., Colby, Sean M., Glaesemann, Kurt R., Jansson, Georg C., and Jansson, Janet K. Tue . "MerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data". United States. doi:10.7287/peerj.preprints.2825v1.
@article{osti_1356502,
title = {MerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data},
author = {White, Richard A. and Panyala, Ajay R. and Glass, Kevin A. and Colby, Sean M. and Glaesemann, Kurt R. and Jansson, Georg C. and Jansson, Janet K.},
abstractNote = {MerCat is a parallel, highly scalable and modular property software package for robust analysis of features in next-generation sequencing data. MerCat inputs include assembled contigs and raw sequence reads from any platform resulting in feature abundance counts tables. MerCat allows for direct analysis of data properties without reference sequence database dependency commonly used by search tools such as BLAST and/or DIAMOND for compositional analysis of whole community shotgun sequencing (e.g. metagenomes and metatranscriptomes).},
doi = {10.7287/peerj.preprints.2825v1},
journal = {PeerJ Preprints},
number = ,
volume = 5,
place = {United States},
year = {Tue Feb 21 00:00:00 EST 2017},
month = {Tue Feb 21 00:00:00 EST 2017}
}