KEC: unique sequence search by K-mer exclusion
Pavel Beran, Dagmar Stehlíková, Stephen P. Cohen, Vladislav Čurn
Abstract
SUMMARY: Searching for amino acid or nucleic acid sequences unique to one organism may be challenging depending on size of the available datasets. K-mer elimination by cross-reference (KEC) allows users to quickly and easily find unique sequences by providing target and non-target sequences. Due to its speed, it can be used for datasets of genomic size and can be run on desktop or laptop computers with modest specifications. AVAILABILITY AND IMPLEMENTATION: KEC is freely available for non-commercial purposes. Source code and executable binary files compiled for Linux, Mac and Windows can be downloaded from https://github.com/berybox/KEC. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.