Opened 5 years ago

Closed 5 years ago

#1221 closed enhancement (fixed)

Display more information in the Variant summary dialog

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

Description

A dialog that displays some information about filtered variants was implemented in [5730]/#1199. We could add some more information to that dialog:

  • The gene name is currently taken from the ANN field. This may contain a lot of entries. It would be better to take it from the ncbiRefSeq fields.
  • Add link to dbSNP for entries with an dbSNP_ID value (eg. rsNNN)
  • TYPE (SNV, Insertion or Deletion)

Change History (3)

comment:1 by Nicklas Nordborg, 5 years ago

In 5805:

References #1221: Display more information in the Variant summary dialog

Added TYPE and dbSNP fields and changed the Gene field to use ncbiRefSeq instead of ANN.

comment:2 by Nicklas Nordborg, 5 years ago

In 5812:

References #1221: Display more information in the Variant summary dialog

Long REF and ALT sequnces are cut after 5 characters (and ... is appended). The full sequence is available as a tooltip.

Count and display number of SNV, Insertions and Deletions.

comment:3 by Nicklas Nordborg, 5 years ago

Resolution: → fixed
Status: new → closed
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