selectvariants

Select variants from a database and create a gvcf.

Quick Start

CLI
$ pbrun selectvariants --ref Ref.fa \
--db-dir database_dir \
--out-gvcf-dir gvcf_dir

Options

Option

Description

--ref

(required)

Path to the reference file.

--db-dir

(required)

Path to the directory which is the genomic database.

--out-gvcf-dir

(required)

Path to output directory which will have all the gvcf with selected variants.

--num-threads

Defaults to 4.

Number of threads for worker.