A single CUI may have many different preferred names in different vocabularies.
If you have a mysql version of UMLS installed, you can do something like
CREATE VIEW pname AS
select cui, lat, ts, lui, stt, sui, ispref, aui, saui, scui, sdui, sab, tty,
code, str, srl, suppress, cvf
from `mrconso`
database.
>
>
> On Mon, Sep 1, 2014 at 10:32 PM, Peter Szolovits wrote:
>
>> A single CUI may have many different preferred names in different
>> vocabularies. If you have a mysql version of UMLS installed, you can do
>> something like
>> CREATE VIEW p
I'd love this! --Pete Szolovits
On Sep 17, 2014, at 5:14 PM, Pei Chen wrote:
> There seems to be an increasing amount questions regarding how to
> 'use/integrate' cTAKES. Some folks have been discussing an
> effort/focus in creating a clean starting point for cTAKES. This could
> be in the form
I have a set of about 27K documents from MIMIC (circa 2009) in which I have
replaced the weird PHI markers by synthesized pseudonymous data. These have
natural sentence breaks (typically in the middle of lines), normal paragraph
structure, bulleted lists, etc. Assuming it goes to people who ha
Ajay, I'm confused by your query. cTakes is good at interpreting text, but
most lab test results are reported in tabular form that is most appropriately
searched by SQL queries. Sometimes lab results are also reported in narrative
notes, but parsing those is often more a matter of deciphering
place such as
a call to ClinicalPipelineFactory.getFastPipeline()g. Is there a way to do
this that I have not been able to find? Thank you. —Peter Szolovits
able to use ctakes.umlsuser and ctakes.umlspw in the command
> line or as environment variables. If your shell requires, you can replace
> the dot with underscore: ctakes_umlsuser ctakes_umlspw
>
> Sean
>
> -Original Message-
> From: Peter Szolovits [mailto:p...@mit
tch...
> --Pei
>
>
> On Mon, Oct 26, 2015 at 1:27 PM, Peter Szolovits wrote:
>> I know that, but was asking specifically whether there is a way for this
>> info to be passed in by a program that embeds cTakes, without having to set
>> environment variables or muck w
would clearly change from the current
one, but one could imagine that it might be better. For example, instead of
using only Specialist lexical tools, one could incorporate recent advances in
vector space embedding and other neural net methods.
—Peter Szolovits
> On Jun 28, 2017, at 11:46
though it’s far from production
quality and does not address all the issues we know.
—Peter Szolovits
> On Jul 17, 2019, at 12:42 PM, Finan, Sean
> wrote:
>
> Hi All,
>
> ctakes-scrubber is not in any ctakes release and it is not in the main
> repository. It never w
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