ucsc-estorient

downloads

Read ESTs from a database and determine orientation based on estOrientInfo table or direction in gbCdnaInfo table. Update PSLs so that the strand reflects the direction of transcription. By default, PSLs where the direction can’t be determined are dropped.
Home http://hgdownload.cse.ucsc.edu/admin/exe/
Versions 332, 357
License varies; see http://genome.ucsc.edu/license
Recipe https://github.com/bioconda/bioconda-recipes/tree/master/recipes/ucsc-estorient

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install ucsc-estorient

and update with:

conda update ucsc-estorient

docker

A Docker container is available at https://quay.io/repository/biocontainers/ucsc-estorient.