BRAT: I was just looking into BRAT because of this paper http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3676157/#bat019-B5
it is interesting that clinical text and genomic text mining are beginning to blur the lines. A few weeks ago the $1000 genome made the news, here comes the annotation challenge. In the next few years we'll see more gene testing labs trying to annotate whatever clinical indications they can get from the test order. Its basically essential to the gene-testing business. On Feb 7, 2014, at 10:49 AM, William Karl Thompson <[email protected]> wrote: > Hi, > > OpenNLP has some code that takes brat annotation files and creates > "BratAnnotation" object instances. I've taken the code and modified it > (simplified in some ways) to generate cTAKES annotations, using a > "BratAnnotator" analysis engine that reads in brat annotation files. I would > be happy to share that code with anyone who wants to look at it and make it > better! > > -Will > ________________________________________ > From: Chen, Pei [[email protected]] > Sent: Friday, February 07, 2014 12:43 PM > To: [email protected] > Subject: RE: Brat > > I think some of the OpenNLP folks did some work with the Brat annotation tool, > but I don't think anyone has worked on it with cTAKES-I would be curious on > your analysis though... > > >> -----Original Message----- >> From: John Green [mailto:[email protected]] >> Sent: Friday, February 07, 2014 6:01 AM >> To: [email protected] >> Subject: Brat >> >> I've done a cursory search and come up short: has anyone written anything >> to convert the annotations from the pipeline to the Brat *.ann format? >> >> Thanks, >> JG
