CuiTools (Coo-e Tools) is a freely available package of Perl programs for unsupervised and supervised word sense disambiguation experiments. The name CuiTools comes from the Concept Unique Identifiers (CUIs) found in the Unified Medical Language System.
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CuiTools: v0.21 released
We are pleased to announce the release of CuiTools version 0.21 CuiTools (Coo-e Tools) is a freely available package of Perl programs for unsupervised and supervised word sense disambiguation (WSD) experiments. The name CuiTools comes from the Concept Unique Identifiers (CUIs) found in the Unified Medical Language System (UMLS). This package allows the users to perform supervised or unsupervised word sense disambiguation using information extracted from the UMLS such as CUIs, semantic types and semantic relations as well as general English features such as unigrams, bigrams and part-of-speech information. As of version 0.21, there has been significant changes in our unsupervised tools and the converters. For our unsupervised tools, we now require the UMLS-Interface module to be installed. This module accesses the UMLS through a mysql database which allows us to incorporate additional UMLS information. For our converters, we have finally fully converted from using the MetaMap Transfer Program (MMTx) to MetaMap. This should dramatically speed up the any tool that was using MMTx.
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CuiTools CuiTools-v0.21 file released: CuiTools-0.21.tar.gz
Changes made in CuiTools version 0.19 during version 0.21 Bridget McInnes bthomson@cs.umn.edu Ted Pedersen tpederse@umn.edu University of Minnesota (1) removed the UMLS::CuiTools::UMLS.pm module (2) add the requirement of using the UMLS::Interface module (in replace of UMLS::CuiTools::UMLS.pm) (3) removed the --cuistdef option if you want to specify both use --cuidef and --stdef (4) added the --pardef option which uses the concepts parent CUIs definition(s) to represent its context (5) added the --chddef option which uses the concepts child CUIs definition(s) to represent its context (6) modified the --cuidef option so that the definition comes from the UMLS::Interface module (7) modified the --stdef option so that the definition comes from the UMLS::interface module (8) updated the test cases to reflect the change in modules (Changelog-v0.19to0.21 Last Updated on 01/20/2009 by Bridget)
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File released: /CuiTools/CuiTools-v0.21/CuiTools-0.21.tar.gz
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CuiTools CuiTools-v0.19 file released: CuiTools-0.19.tar.gz
Changes made in CuiTools version 0.17 during version 0.19 Bridget McInnes bthomson@cs.umn.edu Ted Pedersen tpederse@umn.edu University of Minnesota Changes to supervised disambiguation programs: (1) Added --ngramcount, --cuicount and --stcount options replacing --unigram, --bigram, --trigram, --cui and --st. This now allows us to use all the functionality of NSP's count.pl program for not only ngrams but cuis and semantic types as well. (2) Added --ngrammeasure, --ngramstat, --cuimeasure, --cuistat, --stmeasure and --ststat which utilizes the NSP statistic.pl program for feature selection (3) Added the MeSH terms (--mesh) feature (4) Added confidence and standard deviation information to our --cv option (5) Added a test option (6) Added a --lc option to be used with the --ngramcount options - it lowercases all of the words (7) Updated the mm2plain file to allow for input data that does not contain the <head> tags (8) Added a --nspconfig option to all for multiple calls of --ngramcount, --cuicount and --stcount (9) Added a --javaparam in order to change the size of the java virtual machines memory (10) Noticed --wekaparam wasn't correct - fixed it You can now use the -s NUM option t set the random number seed for cross-validation (11) Added the --conflatedcui option so rather than taking the top CUI if there exist more than one possible CUI in the MetaMap or MMTx output - we push them together creating one large CUI and use that as a feature. (12) Removed plain2mm program and replaced it with plain2prolog so now to the get the mm format you need to run plain2prolog and then prolog2mm - this reduced the redundancy in the various programs (Changelog-v0.17to0.19 Last Updated on 07/07/2008 by Bridget)
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File released: /CuiTools/CuiTools-v0.19/CuiTools-0.19.tar.gz
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CuiTools: v0.19 released
CuiTools (Coo-e Tools) is a freely available package of Perl programs for unsupervised and supervised word sense disambiguation experiments. The name CuiTools comes from the Concept Unique Identifiers (CUIs) found in the Unified Medical Language System. We are pleased to announce the release of CuiTools version 0.19 CuiTools (Coo-e Tools) is a freely available package of Perl programs for unsupervised and supervised word sense disambiguation (WSD) experiments. The name CuiTools comes from the Concept Unique Identifiers (CUIs) found in the Unified Medical Language System (UMLS). This package allows the users to perform supervised or unsupervised word sense disambiguation using information extracted from the UMLS such as CUIs, semantic types and semantic relations as well as general English features such as unigrams, bigrams and part-of-speech information. As of version 0.19, there has been significant changes in our supervised tools and the converters. For our supervised tools, we incorporated the ability to use the entire functionality provided by the Ngram Statistic Package (NSP) count.pl and statistic.pl programs to obtain features for the machine learning algorithm. This allows ngrams of varying length N to be used as features with the standard count.pl --frequency, --remove and --stop options. What is unique is that this feature is available not just for words but also for CUIs and semantic types. This functionality also includes measures of association to be obtained to help determine which ngrams should be included in the feature list. For our converters, we have modified their insides in hopes of making them clearer. We also corrected some errors that were found in the conversion process.
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CuiTools-v0.17 released
Hello, We are pleased to announce the release of CuiTools version 0.17 CuiTools (Coo-e Tools) is a freely available package of Perl programs for unsupervised and supervised word sense disambiguation (WSD) experiments. The name CuiTools comes from the Concept Unique Identifiers (CUIs) found in the Unified Medical Language System (UMLS). This package allows the users to perform supervised and unsupervised word sense disambiguation using information extracted from the UMLS such as CUIs, semantic types and semantic relations as well as general English features such as unigrams, bigrams and part-of-speech information. As of version 0.17, there has been significant changes. We now offer unsupervised WSD tools along with our supervised tools. With this inclusion, there has been a number of organizational changes and documentation revisions in hopes to make the package more user friendly. Thank you! Bridget
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