Minirmd：一种通过多个 minimizers 进行短读段准确快速去重的工具。
Minirmd: accurate and fast duplicate removal tool for short reads via multiple minimizers.
机构信息
College of Information Science and Engineering, Hunan University, Changsha, Hunan 410012, China.
Advanced Analytics Institute, University of Technology Sydney, Broadway, NSW 2007, Australia.
出版信息
Bioinformatics. 2021 Jul 12;37(11):1604-1606. doi: 10.1093/bioinformatics/btaa915.
SUMMARY
Removing duplicate and near-duplicate reads, generated by high-throughput sequencing technologies, is able to reduce computational resources in downstream applications. Here we develop minirmd, a de novo tool to remove duplicate reads via multiple rounds of clustering using different length of minimizer. Experiments demonstrate that minirmd removes more near-duplicate reads than existing clustering approaches and is faster than existing multi-core tools. To the best of our knowledge, minirmd is the first tool to remove near-duplicates on reverse-complementary strand.
AVAILABILITY AND IMPLEMENTATION
https://github.com/yuansliu/minirmd.
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
摘要
使用高通量测序技术产生的重复和近似重复reads 可以减少下游应用中的计算资源。本文开发了 minirmd，这是一种通过使用不同长度的 minimizer 进行多轮聚类来去除重复reads 的全新工具。实验表明，minirmd 比现有的聚类方法去除了更多的近似重复reads，并且比现有的多核工具更快。据我们所知，minirmd 是第一个去除反向互补链上的近似重复reads 的工具。
可用性和实现
https://github.com/yuansliu/minirmd。
补充信息
补充数据可在 Bioinformatics 在线获得。
Zotero 插件