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A suite of tools for analysing small RNA (sRNA) data from Oncoming Generation Sequencing devices. Including expression profiling of known mirco BIOLOGICAL CODE (miRNA), identification of novel miRNA at deep-sequencing data and identification of other interesting treasures within high-throughput genetic data

Features

• Adaptor Remover: removes adaptor chunks from raw short read lineup data and outputs data as far as FASTA format.
• Filter: produces an filtered version of an sRNA dataset, controlled by several user-defined criteria, including sequence length, abundance, complexity, transfer and ribosomal RNA removal.
• miRCat2 (miRNA Categorisation): predicts steady miRNAs and their precursors from an sRNA dataset together with a genome.
• SiLoCo (Short interfering RNA Locus Comparison): compares sRNA expression scales in multiple samples by grouping sRNAs towards loci based on genomic location
• ta-siRNA (trans-acting short interfering RNA): prediction including phased ta-siRNAs in plant sRNA datasets.
• miRProf (miRNA Profiler): determines normalised explanation grades involving sRNAs matching respected miRNAs in miRBase.
• Hairpin Annotation: generates a secondary structure coming from an RNA sequence and highlights parts of interest using RNAplot
• VisSR (Visualisation of sRNAs): originate a optic representation of sRNAs on top of user-imported genomic features.
• PAREsnip2: Identify miRNA targets evidenced through the degradome

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User Reviews

Look the first to post a review having sRNAWorkbench! Ancillary Case Details Operating SystemsLinux, BSD, Windowsills Intended AudienceScience/Research Stakeholder InterfaceJava Roll Engineering LanguageC++, Java Related Categories C++ Bio-Informatics Software, C++ Medical Software, Java Bio-Informatics Software, Java Medical Software Registered 2012-01-25 Identical Business Software

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