umis

A tool for expression estimation in RNA-seq tagged data. The umis package includes tools for read formatting, barcode filtering, pseudo-mapping to cDNAs, and counting molecular identifiers.

Topic

Gene expression; RNA-seq

Details

Operation: RNA-Seq quantification; RNA-Seq analysis
Software interface: Command-line user interface; Suite
Language: Python
Operating system: Linux; Mac OS X; Microsoft Windows
License: The MIT License

Cost

Version name: 1.0.4

Maturity:

Credit: Cancer Research UK, European Research Council, the Wellcome Trust, Medical Research Council Cambridge Stem Cell Institute, Lister Institute.
Contact: Valentine Svensson vale _at_ ebi.ac.uk | Sarah A Teichmann st9 _at_ sanger.ac.uk
Collection: -

Publications

Svensson V, Natarajan KN, Ly LH, Miragaia RJ, Labalette C, Macaulay IC, Cvejic A, Teichmann SA "Power analysis of single-cell RNA-sequencing experiments." Nat Methods. 2017 Apr;14(4):381-387. https://doi.org/10.1038/nmeth.4220
PMID: 28263961
PMCID: PMC5376499

Download and documentation

Source: https://github.com/vals/umis/
Documentation: https://github.com/vals/umis/blob/master
/README.md
Home page: https://github.com/vals/umis/

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