KaMRaT: a C++ toolkit for k-mer count matrix dimension reduction

Abstract

Abstract Motivation KaMRaT is designed for processing large k-mer count tables derived from multi-sample, RNA-seq data. Its primary objective is to identify condition-specific or differentially expressed sequences, regardless of gene or transcript annotation. Results KaMRaT is implemented in C++. Major functions include scoring k-mers based on count statistics, merging overlapping k-mers into contigs and selecting k-mers based on their occurrence across specific samples. Availability and implementation Source code and documentation are available via https://github.com/Transipedia/KaMRaT.