The r-index is a tool for compressed indexing of genomic databases for exact pattern matching, which can be used to completely align reads that perfectly match some part of a genome in the database or to find seeds for reads that do not. This article shows how to download and install the programs ri-buildfasta and ri-align; how to call ri-buildfasta on an FASTA file to build an r-index for that file; and how to query that index with ri-align.

中文翻译：

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使用 r-Index 将读数与许多基因组匹配。

r-index 是一种用于精确模式匹配的基因组数据库压缩索引工具，可用于完全对齐与数据库中基因组某些部分完美匹配的读数，或为不匹配的读数寻找种子。本文展示了如何下载和安装程序 ri-buildfasta 和 ri-align；如何在 FASTA 文件上调用 ri-buildfasta 来为该文件构建 r-index；以及如何使用 ri-align 查询该索引。