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OMIC
04271

Comprehensive Analysis Pipeline for microRNA Sequencing data CAP-miRSeq

Integrates read pre-processing, alignment, mature/precursor/novel miRNA detection and quantification, data visualization, variant detection in miRNA coding region, and more flexible differential expression analysis between experimental conditions.

Specifications

Software type:
Package
Interface:
Command line interface
Restrictions to use:
None
Operating system:
Unix/Linux
Programming languages:
Perl, Python, R
License:
GNU General Public License version 2.0
Computer skills:
Advanced
Stability:
Stable
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Publications

  • (Sun et al., 2014) CAP-miRSeq: a comprehensive analysis pipeline for microRNA sequencing data. BMC genomics.
    PMID: 24894665

Classification

Literature

  • (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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