Identification and removal of ribosomal RNA sequences from metatranscriptomes

Robert Schmieder, Yan Wei Lim, Robert Edwards

Research output: Contribution to journalArticle

114 Citations (Scopus)

Abstract

Here, we present riboPicker, a robust framework for the rapid, automated identification and removal of ribosomal RNA sequences from metatranscriptomic datasets. The results can be exported for subsequent analysis, and the databases used for the web-based version are updated on a regular basis. riboPicker categorizes rRNA-like sequences and provides graphical visualizations and tabular outputs of ribosomal coverage, alignment results and taxonomic classifications.

Original languageEnglish
Article numberbtr669
Pages (from-to)433-435
Number of pages3
JournalBioinformatics
Volume28
Issue number3
DOIs
Publication statusPublished - 1 Feb 2012
Externally publishedYes

Bibliographical note

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited

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