ESAT

ESAT (End Sequence Analysis Toolkit) is a tool to compute read counts directly fromSAM/BAM and BED files for Digital expression (DGE) libraries in single-cell RNA-seq (scRNA-seq) data.

Topic

RNA-seq

Details

Operation: RNA-Seq analysis
Input: BAM, SAM, BED
Output: TXT
Software interface: Command-line user interface
Language: Java
Operating system: Linux; Mac OS X; Microsoft Windows
License: Not stated

Cost

Version name: -

Credit: The National Institutes of Health (NIH), National Human Genome Research Institute, National Institute on Drug Abuse, Human Islet Research Network.
Contact: manuel.garber _at_ umassmed.edu
Collection: -

Publications

Derr A, Yang C, Zilionis R, Sergushichev A, Blodgett DM, Redick S, Bortell R, Luban J, Harlan DM, Kadener S, Greiner DL, Klein A, Artyomov MN, Garber M "End Sequence Analysis Toolkit (ESAT) Expands the Extractable Information From Single-Cell RNA-seq Data " Genome Res. 2016 Oct;26(10):1397-1410. https://doi.org/10.1101/gr.207902.116
PMID: 27470110
PMCID: PMC5052061

Download and documentation

Source: https://github.com/garber-lab/ESAT
Documentation: https://github.com/garber-lab/ESAT/blob/
develop/README.md
Home page: https://github.com/garber-lab/ESAT

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