enHunter

A pipeline to identify enhancer RNAs (eRNAs) from total RNA-seq data

running enHunter on Terra

see the /WDL for the .wdl scripts

1. create Docker image using the scripts in /WDL/Docker.

docker build --tag name /WDL/Docker/script/Dockerfile

2. create Broad Methods Repository and import WDL script

WDL scripts

TNE_caller.wdl -- detects transcribed noncoding elements

bam2bigwig.19.wdl -- converts alignment file (.bam) to normalized genomic coverage file (.bigwig)

combine_bigwig.24.wdl -- combine bigwig for multiple samples from the same group

star_splice_sites.wdl -- determine splice sites present in > 5 star junction files