Description

merge GVCFs from multiple samples. For use in joint genotyping or somatic panel of normal creation.

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

3 ()

4 ()

5 ()

run_intlist (boolean)

Specify whether to run get interval list mode, this option cannot be specified at the same time as run_updatewspace.

true/false

run_updatewspace (boolean)

Specify whether to run update genomicsdb mode, this option takes priority over run_intlist.

true/false

input_map (boolean)

Specify whether the vcf input is providing a list of vcf file(s) or a single file containing a map of paths to vcf files to be used to create or update a genomicsdb.

*.sample_map

Output

Name
Description
Pattern

0 ()

0 ()

0 ()

0 ()

Tools

gatk4 Documentation

Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size.

doi: 10.1158/1538-7445.AM2017-3590
Authors