Polyphen_SIFT: allow flexibility in choosing tools #763
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| @@ -250,16 +274,21 @@ sub run { | |||
| my ($tool, $analysis) = split('_', $tool_string); | |||
| my $lc_tool = lc($tool); | |||
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Do we want to run the plugin even when all the three tools have "o"
Suggested change
| return {} if $self->{sift} eq 'o' && $self->{polyphen} eq 'o' && $self->{humdiv} eq 'o'; |
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https://www.ebi.ac.uk/panda/jira/browse/ENSVAR-6567
Required in VEP in new infrastructure in absence of VEP cache.
Allow users to chose what score they want. Added following options -
sift- [p|s|b|o] works similarly as --sift option in VEP. The valueoturns off SIFT score/prediction.polyphen- [p|s|b|o] same as sift for PolyPhen humvar.humdiv- [p|s|b|o] same as sift for PolyPhen humdiv.Test
Try using different permutation of the options.