Mostly consistently left align in surject

vgteam / vg

tools for working with genome variation graphs

https://biostars.org/tag/vg/

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Mostly consistently left align in surject #4229

Closed jeizenga closed 4 months ago

jeizenga commented 4 months ago

Changelog Entry

To be copied to the draft changelog by merger:

vg surject will left align relative to the forward strand most of the time.

Description

vg surject will now left-align on the forward strand and right-align on the reverse strand of a node. The net effect is to produce more identical edits from reads mapped to opposite strands. There are still some weird cases when indels span node boundaries, but this should handle the vast majority of cases.

jeizenga commented 4 months ago

Something is being held up on the reporting, but tests have passed. I'm merging without the report so I can make a release.