Reference

Bio::DB::EUtilities::ElinkData(3pm)

Bio::DB::EUtilities::ElinkData *** Give standard usage here *** Describe the object here
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Email cjfields at uiuc dot edu The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
elink_dbfrom

 Title   : elink_dbfrom
 Usage   : $dbfrom = $linkset->elink_dbfrom;
 Function: gets/sets dbfrom value
 Returns : originating database
 Args    : originating database

elink_queryids

 Title   : elink_queryids
 Usage   : @ids = $linkset->elink_queryids;
 Function: gets/sets original query ID values (ref to array)
 Returns : array or array ref of IDs (based on wantarray)
 Args    : array ref of IDs

elink_command

 Title   : elink_command
 Usage   : $cmd = $linkset->elink_command;
 Function: gets/sets cmd used for elink query
 Returns : string (cmd parameter)
 Args    : string (cmd parameter)

get_LinkIds_by_db

 Title   : get_LinkIds_by_db
 Usage   : @ids = $linkset->get_LinkIds_by_db('protein');
 Function: retrieves primary ID list based on the database for the object
 Returns : array or array ref of IDs (based on wantarray)
 Args    : None

next_linkdb

 Title   : next_linkdb
 Usage   : while (my $db = $linkset->next_linkdb) {
 Function: iterates through list of database names in internal queue
 Returns : String (name of database)
 Args    : None

get_all_linkdbs

 Title   : get_all_linkdbs
 Usage   : @dbs = $linkset->get_all_linkdbs;
 Function: returns all database names which contain IDs
 Returns : array or array ref of databases (based on wantarray)
 Args    : None

next_scoredb

 Title   : next_scoredb
 Usage   : while (my $db = $linkset->next_scoredb) {
 Function: iterates through list of database with score values
 Returns : String (name of database)
 Args    : None

get_all_scoredbs

 Title   : get_all_scoredbs
 Usage   : @dbs = $linkset->get_all_scoredbs;
 Function: returns database names which contain scores
 Returns : array or array ref of databases (based on wantarray)
 Args    : None

get_score

 Title   : get_score
 Usage   : $score = $linkset->get_score($id);
 Function: returns score value for ID
 Returns : score value
 Args    : ID
 Note    : if multiple databases are returned with scores (rare but possible),
         : you must set the default score database using set_scoredb.  If you
         : use next_scoredb to iterate through the databases, this is done for you

get_score_hash

 Title   : get_score_hash
 Usage   : %scores = $linkset->get_score_hash($database);
 Function: returns ID(key)-score(value) hash based on database name
 Returns : score value
 Args    : OPTIONAL : database name.  If there is only one score hash, returns
         : that hash, otherwise throws an exception

set_scoredb

 Title   : set_scoredb
 Usage   : $linkset->set_scoredb('protein');
 Function: sets the database to retrieve scores from
 Returns : None
 Args    : database name

rewind_linkdbs

 Title   : rewind_linkdbs
 Usage   : $linkset->rewind_linkdbs;
 Function: resets the iterator for next_database
 Returns : None
 Args    : None

rewind_scoredbs

 Title   : rewind_scoredbs
 Usage   : $linkset->rewind_scoredbs;
 Function: resets the iterator, current database for next_scoredb
 Returns : None
 Args    : None