Description

A Python application to generate self-contained HTML reports for variant review and other genomic applications

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

sites (file)

VCF, BED, MAF, BEDPE, or generic tab delimited file of genomic variant sites

genomeFasta (file)

Reference fasta file

*.{fasta,fa}

Output

Name (Type)
Description
Pattern

versions (file)

File containing software versions

versions.yml

report (file)

html report with a table of genomic sites and an embedded IGV genome browser for viewing data for each site

*.{html}

Tools

igvreports
MIT

Creates self-contained html pages for visual variant review with IGV (igv.js).