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mi RP ursuit—a pipeline for automated analyses of small RNA s in model and nonmodel plants
Author(s) -
Chaves Inês,
Costa Bruno Vasques,
Rodrigues Andreia S.,
Bohn Andreas,
Miguel Célia M.
Publication year - 2017
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1002/1873-3468.12746
Subject(s) - pipeline (software) , workflow , computer science , transfer rna , unix , small rna , scripting language , computational biology , software , rna , database , operating system , biology , genetics , gene
miRPursuit is a pipeline developed for running end‐to‐end analyses of high‐throughput small RNA ( sRNA ) sequence data in model and nonmodel plants, from raw data to identified and annotated conserved and novel sequences. It consists of a series of UNIX shell scripts, which connect open‐source sRNA analysis software. The involved parameters can be combined with convenient workflow management by users without advanced computational skills. mi RP ursuit presents several advantages when compared to other tools, including the possibility of processing several sRNA libraries in parallel, thus easily allowing a comparison of the differences in sRNA read accumulation among sRNA libraries. We validate mi RP ursuit by using datasets from a model plant and discuss its performance with the analysis of sRNA s from non‐model species.