saphir746 / biobankread-bash Goto Github PK
View Code? Open in Web Editor NEWPython scripts to extract and pre-process UKB data
License: GNU General Public License v3.0
Python scripts to extract and pre-process UKB data
License: GNU General Public License v3.0
Hi there! Thanks so much for the awesome package. I was in the process of writing my own phenotype parser when I found out about this, it saved me a lot of time and also provided guidance for the use cases that are specific to me.
I have some questions about the package:
White
for ethnic background, it would give all people who are either "White", "British", "Irish", and "Other white background"?html
file for the field-related information. Aside from the html being UKB data access application specific, is there a reason why the data dictionary csv was not used? I'm currently using it and wonder if you avoided it because of a specific reason.Thanks!
Hello!
Looks great, you may want to provide instructions for installation, make it pip install-able and add a release in GitHub?
It already has a setup.py so might be that the instructions are incomplete at the moment?
Best,
Antonio
Hi! thank you so much for sharing! this is super helpful !
I am very new to git and command line. I have tried to use BiobankRead, but I kept on getting this error message:
Traceback (most recent call last):
File "extract_variables.py", line 406, in <module>
raise ImportError('UKBr could not be loaded properly')
ImportError: UKBr could not be loaded properly
it will be great if you can help me with it! Appreciated!
Hannah
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