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phbradley / tcr-dist

Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
MIT License
79 stars 36 forks source link

setup_gammadelta_db.py issue #40

Closed crushseven-7 closed 3 years ago

crushseven-7 commented 3 years ago

Hi there, When I setup gammadelta database, I found in line 66 still set your own path. It might better provide file in github. Best, Yan

phbradley commented 3 years ago

Hi Yan-- sorry for the confusion. That script ("setup_gammadelta_db.py") was just for making the database file, it's not needed anymore. To analyze gamma deltas you just need to uncomment this line:

https://github.com/phbradley/tcr-dist/blob/master/basic.py#L36

and comment out this line

https://github.com/phbradley/tcr-dist/blob/master/basic.py#L35

The database file ("gammadelta_db.tsv") is already in the db/ directory after you run setup.py.

crushseven-7 commented 3 years ago

many thanks! I might use the old version so I construct "gammadelta_db.tsv" by myself.