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A one-touch integrated small RNA analysis pipeline (iSRAP) research tool that is composed of widely used tools for rapid profiling of small RNAs. The performance test of iSRAP using publicly and in-house available data sets shows its ability of comprehensive profiling of small RNAs of various classes, and analysis of differentially expressed small RNAs. The flexible and powerful features of iSRAP enable a comprehensive analysis of small RNAs, which covers from quality assessment of input data to differential expression analysis and visualization of results with the ease of use. iSRAP can potentially serve as a platform for rapid analysis of transcriptomic data so that a better-informed decision can be made on the downstream analyses.

Software type:
Command line interface
Restrictions to use:
Input data:
Operating system:
GNU General Public License version 2.0
Computer skills:
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  • Andrew F. Hill <andrew.hill at latrobe.edu.au>


Department of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Melbourne, VIC, Australia; Victorian Life Sciences Computation Initiative (VLSCI), The University of Melbourne, Melbourne, VIC, Australia; Department of Biochemistry and Genetics, La Trobe Institute for Molecular Science, La Trobe University, Melbourne, VIC, Australia

Funding source(s)

This work was supported by the Australian Research Council (FT100100560) and the National Health and Medical Research Council (628946).

  • (Quek et al., 2015) iSRAP – a one-touch research tool for rapid profiling of small RNA-seq data. Journal of extracellular vesicles.
    PMID: 26561006
  • (Li et al., 2012) Performance comparison and evaluation of software tools for microRNA deep-sequencing data analysis. Nucleic acids research.
    PMID: 22287634
  • (Liu et al., 2014) Identifying miRNAs, targets and functions. Briefings in bioinformatics.
    PMID: 23175680

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