GL-1941. Handle Out of Range Values in GTC metrics #1777
Merged
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
In VcfToAdpc, if value is a '?' (which was what had been encoded for infinite) treat as missing.
gbggrant
changed the title
wjdingman1
approved these changes
Feb 17, 2022
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Description
https://broadinstitute.atlassian.net/browse/GL-1941
In GtcToVcf, set infinite values to missing ('.') in the VCF.
In VcfToAdpc, if value is a '?' (which was what had been encoded for infinite) treat as missing.
Checklist (never delete this)
Never delete this, it is our record that procedure was followed. If you find that for whatever reason one of the checklist points doesn't apply to your PR, you can leave it unchecked but please add an explanation below.
Content
Review
For more detailed guidelines, see https://github.com/broadinstitute/picard/wiki/Guidelines-for-pull-requests