Merge pull request #937 from olaaustine/update_pick_vfoau

Fixing an issue
Ensembl · Jan 5, 2023 · 461ca7f · 461ca7f
2 parents c867582 + bc2524e
commit 461ca7f
Showing 1 changed file with 2 additions and 0 deletions.
diff --git a/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm b/modules/Bio/EnsEMBL/Variation/Utils/VEP.pm
@@ -2204,6 +2204,7 @@ sub pick_worst_vfoa {
       appris => 100,
       ensembl => 1,
       refseq => 1,
+      mane => 1,
     };
 
     if($vfoa->isa('Bio::EnsEMBL::Variation::TranscriptVariationAllele')) {
@@ -2213,6 +2214,7 @@ sub pick_worst_vfoa {
       $info->{canonical} = $tr->is_canonical ? 0 : 1;
       $info->{biotype} = $tr->biotype eq 'protein_coding' ? 0 : 1;
       $info->{ccds} = $tr->{_ccds} && $tr->{_ccds} ne '-' ? 0 : 1;
+      $info->{mane} = $tr->is_mane ? 0 : 1;
       $info->{lc($tr->{_source_cache})} = 0 if exists($tr->{_source_cache});
 
       # "invert" length so longer is best