It is recommended to first read the individual READMEs for each of the packages above, which can be found in their respectively named folders under LocoColoc. This README only provides information on usage of the loco_coloc script and its arguments.
Below is a list of the parameters of running loco_coloc.py:
- -h Show the help menu.
- -cg/--colo-gene Run with this flag to run ColoGene. Code for this package can be found in /ColoGene. Mutually exclusive with ColocQuiaL flag
- -cql Run with this flag to run ColocQuiaL. Code for this package can be found in /ColocQuiaL. Mutually exclusive with ColocQuiaL flag.
- -f Required path to JSON input file containing params for packages to be run. Template available as config.JSON.
- -eqt/--eqtplot Use either of these optional flags to run eQTpLot. Code for this package can be found in /eQTpLot.
- --no-eqtplot* Use this flag to not run eQTpLot. Can also be omitted as default is to not run eQTpLot. Mutually exclussive with -eqt/--eqtplot.