Opened 4 years ago

Closed 4 years ago

#1222 closed enhancement (fixed)

Remove the G5 distance calculations from the variant calling script

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v4.25
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

The calculations depend on the G5 flag that existed in dbSNP 151, but it seems like it has been removed in dbSNP 153. The G5 flag is also used in the filter expression. So it needs to be removed from there also, but we believe that the COMMON flag should be enough.

Change History (3)

comment:1 by Nicklas Nordborg, 4 years ago

In 5810:

References #1222: Remove the G5 distance calculations from the variant calling script

Removed scripts and files used by the G5 distance calculations.

comment:2 by Nicklas Nordborg, 4 years ago

In 5811:

References #1222: Remove the G5 distance calculations from the variant calling script

Removed code for doing G5 distance calculcations and annotations

comment:3 by Nicklas Nordborg, 4 years ago

Resolution: → fixed
Status: new → closed
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