CSV
When setting the dbms
parameter in the biocypher_config.yaml
to csv
, the
BioCypher Knowledge Graph is written to CSV files.
CSV settings
To overwrite the standard settings of the CSV writer, add a csv
section to the
biocypher_config.yaml
file. The following settings are possible:
biocypher_config.yaml
csv:
### CSV/Pandas configuration ###
delimiter: ',' # The delimiter used in the CSV files. Default is ','.
Offline mode
Running BioCypher
After running BioCypher with the offline
parameter set to true
and the
dbms
set to csv
, the output folder contains:
*.csv
: The CSV files containing the node/edge data.import_pandas_csv.csv
: A Python script to load the created CSV files into Pandas DataFrames.