KaMRaT：一种用于 k-mer 计数矩阵降维的 C++工具包。
KaMRaT: a C++ toolkit for k-mer count matrix dimension reduction.
机构信息
I2BC, Université Paris-Saclay, CNRS, CEA, 91190 Gif-sur-Yvette, France.
Univ. Lille, CNRS, Centrale Lille, UMR 9189 CRIStAL, F-59000 Lille, France.
出版信息
Bioinformatics. 2024 Mar 4;40(3). doi: 10.1093/bioinformatics/btae090.
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.
动机
KaMRaT 是为处理来自多样本 RNA-seq 数据的大 k-mer 计数表而设计的。它的主要目的是识别特定于条件或差异表达的序列，而不考虑基因或转录本注释。
结果
KaMRaT 是用 C++实现的。主要功能包括基于计数统计对 k-mers 进行评分、将重叠的 k-mers 合并成连续体，并根据它们在特定样本中的出现情况选择 k-mers。
可用性和实现
源代码和文档可通过 https://github.com/Transipedia/KaMRaT 获得。
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