Finally on GitHub

After much slacking and shuffling on my part, I've finally gone ahead and signed up for a GitHub account.  The first project I'll be getting updated is the UIMA.NET support library.  The purpose of this project is to allow .NET developers (like myself) to have an easy-to-use assembly for accessing UIMA documents.  This is being developed specifically around cTAKES NLP engine to begin with, so perhaps the title is slightly misleading, but I'm hoping that it will grow over time.

Right now the library offers basic functionality for identifying cTAKES objects within a document and being able to extract those items or merge them with other types of objects.  Ideally there will be more advanced LINQ support, but I see that as being a few months out before I'll probably have time to get to it.

Comments

Post a Comment

Popular posts from this blog

Chicago Informatics Week

Happy Informatics Week , Chicago! I must say I'm particularly pleased that today through November 7th we will have the unique opportunity to have the field of informatics not only "officially" recognized by our mayor, but to have it done so in a way that will provide more exposure to what informatics is and what impact it has made in healthcare. For those of you in the Chicago area who may not be aware of the events, you can find a list at: http://chicagoinformaticsweek.org/events.html This, of course, is right around the time of the AMIA Annual Symposium, and following will be the CTSA Informatics meeting.  I'm excited to be heading an AMIA panel on the changing face of security and privacy with respect to the role that "honest brokers" play (session S69, Tuesday from 3:30-5:00), and a poster describing recent work to integrate a research registry recruitment system into a commercial EHR vendor's patient portal. I'm looking forward to catch
Read more

My ideal resume

As I'm getting ready for a yearly performance review, I started thinking about when I applied for this and previous jobs and all of the effort I put into building the "perfect" resume. Tweaking it to have the right keywords for the job description, making sure I didn't overstate or understate my effort, but making sure whoever read this knew I was the best candidate. I started thinking about what that really translates to at my job, and what skills are practical and important each day. I came up with this as my new resume (no, not sending it out, very happy at my current job but thanks). Of course I realize sometimes you have to "play the game", but tell me this isn't what you're really looking for in an employee: I know I need to keep learning, and so I do.  I can (and do) listen better than I can speak.  I won't be a jerk to anyone in the organization, no matter their role.  I will come in to work and genuinely want to be there. I&#
Read more

QRDA Cat 1 imports in popHealth - Why is only one encounter shown?

Recently I was working with some colleagues to try to understand why their QRDA Cat 1 XML files were being imported into popHealth with no errors (that's a good thing), but only including one encounter out of several encounters listed in the file (that's a bad thing).  This was in popHealth v5.0.  Some changes have been made in popHealth v5.1 to use the go-cda-tools library, and I'm not sure if these findings still hold true for that version. The logic for importing files of any type in popHealth is really done by the health-data-standards (or HDS for short) library.  It's worth noting that popHealth has its own fork of HDS that it maintains.  Specifically, v5.0 uses the mongoid5R2 branch for production use (you can see this within popHealth's Gemfile ). So what was going on?  After doing some tracing, we can see that during the loading process, a call is made here to deduplicate records:    https://github.com/OSEHRA/health-data-standards/blob/master/lib/heal
Read more