To whom it may concern, Hello! I am a student researcher who is new to NLP and cTAKES. I am trying to use cTAKES to extract clinical text indicative of BRCA mutations, and I’m feeling a bit lost. I’ve described my current progress below. Wondering if you can guide me to the next step:
So far, I’ve been able to create .xml files for each subject in my dataset, run the files through the default clinical pipeline, and view the annotated output files in the CVD. However, my goal is to “filter” the annotations for concepts relevant to BRCA mutations (such as UMLS CUIs and SNOMED CT terms), and this is where I’m getting stuck. Is there a way to isolate these specific concepts within the cTAKES system? Or does this require post-processing using a different platform? Thanks for entertaining my amateur question! Leah Baas ----------------------------------------------------------------------- Confidentiality Notice: This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain privileged and confidential information. Any unauthorized review, use, disclosure or distribution is prohibited. If you are not the intended recipient, please contact the sender by reply e-mail and destroy all copies of the original message.
