| Bio::Tools::HMMER::Set(3pm) | User Contributed Perl Documentation | Bio::Tools::HMMER::Set(3pm) |
Bio::Tools::HMMER::Set - Set of identical domains from HMMER matches
# get a Set object probably from the results object
print "Bits score over set ",$set->bits," evalue ",$set->evalue,"\n";
foreach $domain ( $set->each_Domain ) {
print "Domain start ",$domain->start," end ",$domain->end,"\n";
}
Represents a set of HMMER domains hitting one sequence. HMMER reports two different scores, a per sequence total score (and evalue) and a per domain score and evalue. This object represents a collection of the same domain with the sequence bits score and evalue. (these attributes are also on the per domain scores, which you can get there).
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The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : add_Domain Usage : $set->add_Domain($domain) Function: adds the domain to the list Returns : nothing Args : A Bio::Tools::HMMER::Domain object
Title : each_Domain Usage : foreach $domain ( $set->each_Domain() ) Function: returns an array of domain objects in this set Returns : array Args : none
Title : name Usage : $obj->name($newval) Function: Example : Returns : value of name Args : newvalue (optional)
Title : desc Usage : $obj->desc($newval) Function: Example : Returns : value of desc Args : newvalue (optional)
Title : accession Usage : $obj->accession($newval) Function: Example : Returns : value of accession Args : newvalue (optional)
Title : bits Usage : $obj->bits($newval) Function: Example : Returns : value of bits Args : newvalue (optional)
Title : evalue Usage : $obj->evalue($newval) Function: Example : Returns : value of evalue Args : newvalue (optional)
| 2019-10-29 | perl v5.30.0 |