MiRspring: a compact standalone research tool for analyzing miRNA-seq data.

ABSTRACT: High-throughput sequencing for microRNA (miRNA) profiling has revealed a vast complexity of miRNA processing variants, but these are difficult to discern for those without bioinformatics expertise and large computing capability. In this article, we present miRNA Sequence Profiling (miRspring) (http://mirspring.victorchang.edu.au), a software solution that creates a small portable research document that visualizes, calculates and reports on the complexities of miRNA processing. We designed an index-compression algorithm that allows the miRspring document to reproduce a complete miRNA sequence data set while retaining a small file size (typically <3 MB). Through analysis of 73 public data sets, we demonstrate miRspring's features in assessing quality parameters, miRNA cluster expression leve

SUBMITTER: Humphreys DT 

PROVIDER: S-EPMC3753622 | biostudies-literature | 2013 Aug

REPOSITORIES: biostudies-literature