findCP CLI package
Project description
findCPcli
Source
Table of Contents
Install
$ pip install findCPcli
Run
$ findCPcli [-h] [-v] -i <input file> [-o <output file>]
[-cp <output file>] [-swD <output file>] [-sF <output file>]
[-swDF <output file>]
optional arguments:
-h, --help show this help message and exit
-v, --verbose Print feedback while running.
-i <input file> Input metabolic model. Allowed file formats: .xml .json
.yml
-o <output file> Output spreadsheet file with results. Allowed file
formats: .xls .xlsx .ods
-cp <output file> Output spreadsheet file with growth dependent
chokepoints. Allowed file formats: .xls .xlsx .ods
-swD <output file> Save output model without Dead End Metabolites. Allowed
file formats: .xml .json .yml
-sF <output file> Save output model with reactions bounds updated with
Flux Variability Analysis. Allowed file formats: .xml
.json .yml
-swDF <output file> Save output model with reactions bounds updated with
Flux Variability Analysis and without Dead End
Metabolites. Allowed file formats: .xml .json .yml
-objective <reaction id>
Reaction id to be used as objective function with Flux
Balance Analysis
Maintainers
Contributing
Feel free to dive in! Open an issue or submit PRs.
Standard Readme follows the Contributor Covenant Code of Conduct.
License
GPL © Alex Oarga
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