Hello. I've succeeded to solve my installation problem .
I want to use UMLS-Similarity and relatedness in a research paper I'm writing.
In order to do it, I want to calculate (1) similarity and (2) relatedness for
a big dataset (Can get to 1 million and even more calls).
Now I'm able to calculate similarity using the cmd of umls-similarity.pl.
E:\umls_perl\UMLS-Similarity-1.47\utils>umls-similarity.pl skull hand
-user=root -password=###
Default Settings:
--precision 4
--database umls
--hostname localhost
--socket /tmp/mysql.sock
--measure path
User Settings:
--username root
--password XXXXXXX
UMLS-Interface Configuration Information:
(Default Information - no config file)
Sources (SAB):
MSH
Relations (REL):
PAR
CHD
Sources (SABDEF):
UMLS_ALL
Relations (RELDEF):
UMLS_ALL
0.1111<>skull(C0037303)<>hand(C0018563)
But the problem is that it takes a lot of time, several seconds (after it
built an index on the first call)
So my questions are:
1. What is the best way to calculate similarity and relatedness?
2. Is it possible to use it on a big dataset like the one I have?
3. Does anyone a code example for doing several calculations? Calculate a
similarity and relatedness for say, an excel document of pairs? (I'm not really
familiar with perl, what I will learn whatever needed)
Thanks!
