Bridget McInnes > UMLS-Similarity > sim2r.pl

Download:
UMLS-Similarity-1.41.tar.gz

Annotate this POD

CPAN RT

Open  0
View/Report Bugs
Source  

NAME ^

sim2r.pl - This program converts a series of umls-similarity output to R format in order to run the SignificanceTesting.r program.

SYNOPSIS ^

This program converts output generated by umls-similarity.pl to R format in order to run the SignificanceTesting.r program

USAGE ^

Usage: sim2r.pl GOLD_FILE [FILE1 FILE2 ...]

INPUT ^

Required:

GOLD_FILE

This is the gold standard. Usually this is the data that has manually been score by human annotaters. This is what the SignificanceTesting.r program is going to use to determine the correlation against for the other files.

The format of this file is the same as output format of the umls-similarity.pl program.

score<>cui1<>cui2 score<>term1<>term2 ...

FILE1 FILE2 ...

These are the output files generated by the umls-similarity.pl program. The header information in R will be the name of the file.

Options:

--word

The format of hte input files contains words rather than CUIs or is not a umls-simmilarity.pl output file.

--help

Displays the quick summary of program options.

--version

Displays the version information.

OUTPUT ^

A cvs file that can be read by the SignificanceTesting.r program

SYSTEM REQUIREMENTS ^

CONTACT US ^

  If you have any trouble installing and using UMLS-Similarity, 
  please contact us via the users mailing list :
    
      umls-similarity@yahoogroups.com
     
  You can join this group by going to:
    
      http://tech.groups.yahoo.com/group/umls-similarity/
     
  You may also contact us directly if you prefer :
    
      Bridget T. McInnes: bthomson at cs.umn.edu 

      Ted Pedersen : tpederse at d.umn.edu

AUTHOR ^

 Bridget T. McInnes, University of Minnesota

COPYRIGHT ^

Copyright (c) 2007-2011,

 Bridget T. McInnes, University of Minnesota
 bthomson at cs.umn.edu
    
 Ted Pedersen, University of Minnesota Duluth
 tpederse at d.umn.edu


 Siddharth Patwardhan, University of Utah, Salt Lake City
 sidd@cs.utah.edu
 
 Serguei Pakhomov, University of Minnesota Twin Cities
 pakh0002@umn.edu

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.
syntax highlighting: