VEP
Supported Tool
Ensembl VEP determines the effect of your variants on genes, transcripts and protein sequences, as well as regulatory regions.
Description
The VEP module parses the summary statistics generated by Ensembl VEP.
MultiQC parses the VEP summary statistics stored in either HTML or plain text format. Beside VEP’s default naming convention, you can run VEP with one of the options below to use this module:
--stats_file [OUTPUT_FILENAME]_summary.html(VEP’s default naming convention)--stats_file [SAMPLE_NAME].vep.html(without theveporsummarysuffix, MultiQC will ignore the HTML files)--stats_file [SAMPLE_NAME]_vep.html--stats_text --stats_file [SAMPLE_NAME].vep.txt--stats_text --stats_file [SAMPLE_NAME]_vep.txt
See the VEP documentation for more information.
File search patterns
vep/vep_html:
fn: "*.html"
contents: VEP summary
num_lines: 10
max_filesize: 1000000
vep/vep_txt:
contents: "[VEP run statistics]"
num_lines: 1
max_filesize: 100000