Where to find GATK4 ACNV
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3 months ago
noona • 0

I'm interested in finding the tool GATK4 ACNV to generate segmentation files to use with ABSOLUTE.

This tool is mentioned here: https://gatk.broadinstitute.org/hc/en-us/articles/360035889651-Are-there-any-Broad-specific-instructions-for-using-GATK-

and here: https://gatk.broadinstitute.org/hc/en-us/articles/360035890011--How-to-part-II-Sensitively-detect-copy-ratio-alterations-and-allelic-segments

I wanted to use this tool to run locally, however from what I see it is only available on Firecloud and for Broad internal use.

Is there a way for someone outside Broad Institute to use this tool?

segmentation CNV ABSOLUTE GATK • 173 views
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