Sander Tan

@iandoug I think the pip-version is still working (`pip install wikiextractor`), but if you want to checkout the 29 March 2020 commit @gregburman suggested, you can checkout the commit and...

Glad to hear you made it work. The March version with a fix to the category issue works for me.

I also experienced this issue, thanks for pointing the location of the responsible code. I fixed it by moving by moving the `extract categories`-codeblock up: ```python for line in input:...

Seems to be caused around here: https://github.com/CogStack/MedCATtrainer/blob/a6745a781907f1452be2c9bf7f5176f8da91b2a2/webapp/api/api/utils.py#L60 I'll try to debug it.

I think the application uses a general CUI lookup table that spans across projects, because the GET request for filling in this "Concept Summary" can only pass the CUI, not...

Let me know if you would like me to look into adding this change. I'm not sure though if other parts of the application rely on this "one concept table"...

@tomolopolis We can close this one for now. When using different CDB universes with different pretty names, this issue can be solved by setting up multiple MedCATTrainer instances.

I wrote a parser to extract all rows per study, and drop the columns that only contain empty values. Columns with explicit NA values [Not Available] and [Not Applicable] are...

From https://docs.gdc.cancer.gov/Data_Dictionary/viewer/#?view=table-definition-view&id=demographic a JSON file can be retrieved with the terms, pretty names and descriptions. For example: ``` "her2_erbb2_result_fish": { "description": "the type of outcome for HER2 as determined by...

Status: 1. Adding all clinical data to PanCan studies should be possible with ` clinical_PANCAN_patient_with_followup.tsv` source file. There are 746 columns in total. When a column does not have data...