Description

Clusters structural variants based on coordinates, event type, and supporting algorithms

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

ploidy_table (file)

The sample ploidy table

*.tsv

fasta (file)

Reference FASTA file needed when the input is a CRAM file

*.{fasta,fa}

fasta_fai (file)

Index of the reference FASTA file needed when the input is a CRAM file

*.fai

dict (file)

Sequence dictionary of the reference FASTA file needed when the input is a CRAM file

*.dict

Output

Name
Description
Pattern

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.AM2017-3590License: Apache-2.0
Authors