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shortran


Novel miRNA/Precursor Prediction Sequencing Analysis Differential Expression Analysis Known miRNA Identification


Analysis Scheme:
Shortran provides an efficient and user-friendly tool for flexible analysis of sRNA-seq data. Using shortran, user is able to quickly generate and combine annotation and profiling information from a complex sRNA-seq experiment.

Homepage: Link

Last Software Update: Oct. 26, 2012
Publication Date: Aug. 22, 2012
Reference: [Journal] [Pubmed] [CrossRef]
Citations: 9 [via Pubmed]

Organism Specific:
  • plants
  • animals

    • Reference Genome Needed:
    Online/Local: /
    Installation/User Level: advanced
    User Adjustability:
    User support:
    Precomputed Target Results Available For Download:
    License: GPLv3
    Sequencing Analysis
    Algorithm Features:
  • novel miRNA Identification
  • known miRNA identification
  • differential expression

    • Sequencing Platform Specific: Illumina
    PARE/CLIP-Seq: /
    Novel miRNA/Precursor Prediction
    Prediction Features:
  • structure
  • conservation

    • Algorithm: miRDeep2, miRDeep-P
    Novel miRNA / Precursor Analysis: Prediction
    NGS Data Needed:
    Differential Expression Analysis
    Algorithm: -
    miRNA differential expression:
    mRNA differential expression:
    NGS Data Needed:
    Known miRNA Identification
    NGS Data Needed:





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