ERR_finder.R is the script that searches for enhancer-promoter connections using GTEx v7 eQTL data.
The script requires R packages 'tidyverse' and bioconductor package 'GenomicRanges' for running.
Annotation files required for running the script are included in the folder 'ERR-datafiles' can be found at https://www.dropbox.com/sh/5t80oqgu0sbtgx3/AAAwY2EIqhIhRzX7exMn2Ta6a?dl=0
Mandatory input files:
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gencode_info.txt: File containing GENCODE gene annotations
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combinedEnhancerAnnotations.txt: Enhancer annotations from HEDD database (http://zdzlab.einsteinmed.org/1/hedd.php)
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v7_eqtl_data: Tissue specific eQTL data from GTEx v7 release