Description

Creates an interval list from a bed file and a reference dict

Input

Name (Type)
Description
Pattern

meta (map)

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

bed (file)

Input bed file

*.bed

meta2 (map)

Groovy Map containing reference information
e.g. [ id:‘genome’ ]

dict (file)

Sequence dictionary

*.dict

Output

Name (Type)
Description
Pattern

interval_list (file)

gatk interval list file

*.interval_list

versions (file)

File containing software versions

versions.yml
included in
createpanelrefs raredisease rnadnavar rnafusion rnavar
maintainers
Github user kevinmenden
Github user ramprasadn
get in touch
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Tools

gatk4
Apache-2.0

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.

gatk.broadinstitute.org/hc/en-us gatk.broadinstitute.org/hc/en-us/categories/360002369672s 10.1158/1538-7445.AM2017-3590