daniel-munro / tensorqtl-to-fastenloc

Convert tensorQTL output to eQTL annotation input for fastENLOC

tensorqtl-to-fastenloc

Convert tensorQTL output to eQTL annotation input for fastENLOC. This takes three steps:

1. A Python script converts tensorQTL cis_nominal mode output to Matrix eQTL output format.
2. TORUS produces posterior inclusion probabilities (PIP).
3. Another Python script prepares the results in the VCF format used by fastENLOC.

Requirements

• pandas
• fastparquet
• TORUS
• bgzip

Usage

After cloning this repo and installing TORUS, edit the first lines of run.sh with your desired paths and other parameters. Then run bash run.sh on the command line from this directory.