Hello,
We are pleased to announce the release of UMLS-Interface version 1.13 and
UMLS-Similarity version 1.09
UMLS-Interface is a perl interface to the Unified Medical Language System
(UMLS). UMLS-Similarity consists of Perl modules along with supporting
Perl programs that implement semantic relatedness measures.
As of UMLS-Interface version 0.13, we added traversing the semantic network
using the isa relations. So the findPathToRoot.pl and findShortestPath.pl
programs will take semantic types (TUIs or Abbreviations) as input when using
the --st option.
For example:
findShortestPath.pl --st cell bpoc
findPathToRoot.pl --st cell
As of UMLS-Similarity version 1.09, we added a variation of the resnik measure
which will return the information content of the semantic type of the least
common subsumer of the two concepts That is rather a mouthful, this might be
easier to understand:
ic( semantictype( lcs( cui1, cui2) ) )
So this is the original way to run the resnik measure (res):
umls-similarity.pl --measure res hand skull
And here is if you want the semantic type information content resnik measure
(st-res):
umls-similarity.pl --measure res --st hand skull
The results are kind of interseting. Using the default propagation files,
res returns a similarity of 1.2485 where the st-res returns a similarity of
1.8279. Not certain what this means yet but it will be interesting to explore.
The packages can be downloaded from CPAN:
http://search.cpan.org/dist/UMLS-Interface/
http://search.cpan.org/dist/UMLS-Similarity/
If you have any questions or run into any problems, please let me know.
Thank you,
Bridget McInnes
[email protected]
