![]() SortMeRNA is implemented in C++ and freely distributed under the GNU lesser general public license (LGPL). and Touzet H., "SortMeRNA: Fast and accurate filtering of ribosomal RNAs in metatranscriptomic data", Bioinformatics (2012), doi: 10.1093/bioinformatics/bts611. SortMeRNA works with Illumina, 454, Ion Torrent and PacBio data, andĬan produce SAM and BLAST-like alignments. Optionally, it can provide high quality local alignments of rRNA reads against the rRNA database. SortMeRNA takes as input a file of reads (fasta or fastq format) and one or multiple rRNA database file(s), and sorts apart rRNA and rejected reads into two files specified by the user. The main application of SortMeRNA is filtering ribosomal RNA from metatranscriptomic data.Īdditional applications include OTU-picking and taxonomy assignation available through QIIME v1.9+ The core algorithm is based on approximate seeds and allows for fast and sensitive analyses of nucleotide sequences. SortMeRNA is a program tool for filtering, mapping and OTU-picking NGS reads in metatranscriptomic and metagenomic data.
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