Bridget McInnes


UMLS::SenseRelate::AllWords - A Perl module that implement the all-words word sense disambiguation using the sense relate wsd algorithm based on the semantic similarity and relatedness options from the UMLS::Similarity package.


This package provides an implementation of the senserelate word sense disambiguation algorithm using the semantic similarity and relatedness options from the UMLS::Similarity package.


 use UMLS::Similarity;
 use UMLS::SenseRelate::AllWords;

 #  initialize option hash and umls
 my %option_hash = ();
 my $umls        = "";
 my $meas        = "";
 my $senserelate = "";
 my $params      = "";

 #  set interface     
 $option_hash{"t"} = 1;
 $option_hash{"realtime"} = 1;
 $umls = UMLS::Interface->new(\%option_hash);

 #  set measure
 use UMLS::Similarity::path;
 $meas = UMLS::Similarity::path->new($umls);

 #  set senserelate
 $params{"measure"} = "path";
 $params{"candidates"} = 1;
 $senserelate = UMLS::SenseRelate::AllWords->new($umls, $meas, \%params);

 #  set the context array
 my @context = ();
 push @context, "<head id=\"d001.s001.t001\" candidates=\"C1280500,C2348382\">effect</head>";
 push @context, "of";
 push @context, "the";
 push @context, "duration";
 push @context, "of";
 push @context, "prefeeding";
 push @context, "on";
 push @context, "<head id=\"d001.s001.t008\" candidates=\"C0001128,C0002520\">amino acid</head>";
 push @context, "digestibility";
 push @context, "of";
 push @context, "<head id=\"d001.s001.t011\" candidates=\"C0043137,C0087114\">wheat</head>";
 push @context, "distillers";

 my $arrayref = $senserelate->assignSenses(\@context);

 foreach my $element (@{$arrayref}) { 
     print "$element\n";


To install the module, run the following magic commands:

  perl Makefile.PL
  make test
  make install

This will install the module in the standard location. You will, most probably, require root privileges to install in standard system directories. To install in a non-standard directory, specify a prefix during the 'perl Makefile.PL' stage as:

  perl Makefile.PL PREFIX=/home/bridget

It is possible to modify other parameters during installation. The details of these can be found in the ExtUtils::MakeMaker documentation. However, it is highly recommended not messing around with other parameters, unless you know what you're doing.


UMLS::SenseRelate parameters

  'window'       -> This parameter determines the window size of the 
                    context on each side of the target word to be used 
                    for disambiguation
  'weight'       -> This parameter weights the similarity scores based
                    on how far the term or word is from the target word
  'stoplist'     -> This parameter disregards stopwords when creating 
                    the window created on the fly (in realtime). 

  'compound'     -> This parameter indicates that compounds exist in 
                    the input instance denoted by an underscore

  'trace'        -> This parameters indicates that the trace information
                    should be printed out to the file 



Bridget T McInnes <> Ted Pedersen <>


 Copyright (c) 2010-2012
 Bridget T. McInnes, University of Minnesota Twin Cities
 bthomson at

 Ted Pedersen, University of Minnesota Duluth
 tpederse at

 Serguei Pakhomov, University of Minnesota Twin Cities
 pakh0002 at

 Ying Liu, University of Minnesota Twin Cities
 liux0935 at

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program; if not, write to

 The Free Software Foundation, Inc.,
 59 Temple Place - Suite 330,
 Boston, MA  02111-1307, USA.