This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ Preprints) and either DOI or URL of the article must be cited.
Cite this article
White III RA, Panyala A, Glass K, Colby S, Glaesemann KR, Jansson C, Jansson JK.2017. MerCat: a versatile k-mer counter and diversity estimator for database-independent property analysis obtained from metagenomic and/or metatranscriptomic sequencing data. PeerJ Preprints5:e2825v1https://doi.org/10.7287/peerj.preprints.2825v1
MerCat (“ Mer - Cat enate”) is a parallel, highly scalable and modular property software package for robust analysis of features in next-generation sequencing data. Using assembled contigs and raw sequence reads from any platform as input, MerCat performs k-mer counting of any length k, 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 for compositional analysis of whole community shotgun sequencing (e.g., metagenomes and metatranscriptomes).
Initial version of our manuscript submitted for peer review to Bioinformatics