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Implement shortnull redux_gl for exon-level #161

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lgragert opened this issue Apr 12, 2022 · 0 comments · Fixed by #183
Closed

Implement shortnull redux_gl for exon-level #161

lgragert opened this issue Apr 12, 2022 · 0 comments · Fixed by #183
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@lgragert
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Here's the current py-ard redux_gl for A*01:04N.

A*01:04N   lg   A*01:01g
A*01:04N   lgx   A*01:01
A*01:04N   G   A*01:01:01G
A*01:04N   exon   A*01:04:01
A*01:04N   W   A*01:04:01:01N/A*01:04:01:02N

Based on the shortnull rule for propagation of expression characters, A*01:04N should map to A*01:04:01N since both four-field alleles have the same expression character "N".

To compute two-field population freqs (w/o ARD rollup), I had to truncate the exon-level three-field GL strings to two-field, but some of the three-field GL strings are incorrect because of this issue.

WHO (W) mode is correct.

@pbashyal-nmdp pbashyal-nmdp added the bug Something isn't working label May 2, 2022
@pbashyal-nmdp pbashyal-nmdp added this to the Version 0.8.0 milestone May 2, 2022
@pbashyal-nmdp pbashyal-nmdp removed this from the Version 0.8.0 milestone Sep 29, 2022
@pbashyal-nmdp pbashyal-nmdp self-assigned this Nov 10, 2022
@pbashyal-nmdp pbashyal-nmdp added this to the Version 0.9.0 milestone Nov 10, 2022
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