SCOPE++

Accurately identifying homopolymers in cDNA sequences using Hidden Markov Models. This can be extended to trimming poly(A)/poly(T) tails, or identifying A,C,G,T,or N homopolymer sequences.

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Topics

Sequences cDNA DNA

Details

Tool Type:: command-line tool
Operating Systems:: Linux
Programming Languages:: C
Added:: 12/18/2017
Last Updated:: 12/10/2018

Operations

Trimming
Sequence classification
Classification

Publications

Morton JT, Abrudan P, Figueroa N, Liang C, Karro JE. SCOPE++: Sequence Classification Of homoPolymer Emissions. Genomics. 2014;104(3):157-162. doi:10.1016/j.ygeno.2014.07.005. PMID:25087770. PMCID:PMC4165746.

DOI: 10.1016/j.ygeno.2014.07.005

Funding: - National Science Foundation: O953215 - NIH-AREA: 1R15GM94732-1 A1

Documentation

General

https://code.google.com/archive/p/scopeplusplus/wikis/PageName.wiki

Links

Software catalogue

http://www.mybiosoftware.com/scope-0-6-sequence-classification-homopolymer-emissions.html

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