Commit ad7aab1c authored by Monika Komorowska's avatar Monika Komorowska
Browse files

new method pm used for RefSeq_mRNA,nc_RNA xrefs

parent 2168ea57
package XrefMapper::Methods::ExonerateGappedBest5;
use XrefMapper::Methods::ExonerateBasic;
use vars '@ISA';
@ISA = qw{XrefMapper::Methods::ExonerateBasic};
sub options {
return ('--gappedextension FALSE', '--model', 'affine:local', '--subopt', 'no', '--bestn', '5');
}
sub query_identity_threshold {
return 90;
}
sub target_identity_threshold {
return 90;
}
1;
package XrefMapper::Methods::ExonerateGappedBest5_agam;
use XrefMapper::Methods::ExonerateBasic;
use vars '@ISA';
@ISA = qw{XrefMapper::Methods::ExonerateBasic};
sub options {
return ('--gappedextension FALSE', '--model', 'affine:local', '--subopt', 'no', '--bestn', '5');
}
sub query_identity_threshold {
return 55;
}
sub target_identity_threshold {
return 55;
}
1;
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