modules/paragraph_multigrmpy
Genotype structural variants using paragraph and grmpy
vcfjsonstructural variantsgraphsgenotyping
Input
Name (Type)
Description
Pattern
BAM or CRAM file(s) to genotype against. These should be specified inside the manifest
*.{bam,cram}
A tab separated file containing information on the BAM/CRAM files.
This information can be generated using paragraph/idxdepth.
More information can be found here: https://github.com/Illumina/paragraph#sample-manifest
Groovy Map containing sample information for the FASTA file
e.g. [ id:‘test’, single_end
Groovy Map containing sample information for the FASTA index file
e.g. [ id:‘test’, single_end