Added a new WEX test bam to src/test/resources/large, with a companion target interval list #4756
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
…n target interval list This is a ~130 MB snippet of the NexPond-377866 NA12878 bam from https://github.com/broadinstitute/palantir/wiki/Gold-Standard-Datasets with: -all reads from chromosomes 20 and 21 -50,000 unmapped reads added to the end It can be used with the existing human_g1k_v37.20.21.fasta reference in src/test/resources/large Tests that use this new file will be coming in a future branch.
Codecov Report
@@ Coverage Diff @@
## master #4756 +/- ##
===============================================
+ Coverage 79.987% 79.998% +0.011%
Complexity 17421 17421
===============================================
Files 1081 1081
Lines 63119 63119
Branches 10196 10196
===============================================
+ Hits 50487 50494 +7
+ Misses 8648 8641 -7
Partials 3984 3984
|
|
@droazen one thing I just noticed, the header of this includes the full hg19 dict, do we want to replace it with just 20/21? |
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Outdated suggestions cannot be applied.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.
This is a ~130 MB snippet of the NexPond-377866 NA12878 bam from
https://github.com/broadinstitute/palantir/wiki/Gold-Standard-Datasets
with:
-all reads from chromosomes 20 and 21
-50,000 unmapped reads added to the end
It can be used with the existing human_g1k_v37.20.21.fasta reference in
src/test/resources/large
Tests that use this new file will be coming in a future branch.