IsoSCM

IsoSCM (Isoform Structural Change Model) is a tool to annotate 3 prime UTRs in RNA-seq data. The IsoSCM algorithm uses change-point analysis to improve annotation assessment.

Topic

RNA-Seq; Transcriptomics; Gene expression; Cell biology; Pathology

Details

Operation: Sequence feature detection
Input: BAM
Output: -
Software interface: Command-line user interface
Language: Java
Operating system: Linux; Microsoft Windows
License: Not stated

Cost

Version name: -

Credit: The Tri-Institutional Training Program in Computational Biology and Medicine the Canadian Institutes of Health Research, the Burroughs Wellcome Fund, the National Institute of General Medical Sciences of the National Institutes of Health.
Contact: Eric C. Lai laie _at_ mskcc.org
Collection: -

Publications

Shenker S, Miura P, Sanfilippo P, Lai EC "IsoSCM: improved and alternative 3' UTR annotation using multiple change-point inference." RNA 2015; 21(1):14-27 https://doi.org/10.1261/rna.046037.114
PMID: 25406361
PMCID: PMC4274634

Download and documentation

Source: https://github.com/shenkers/isoscm
Documentation: https://github.com/shenkers/isoscm/blob/
master/README.md
Home page: https://github.com/shenkers/isoscm

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IsoSCM

IsoSCM

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Download and documentation

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