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Leandro Watanabe 2017-12-12 22:07:41 -07:00 • committed by GitHub
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learn/README.md
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@ -12,14 +12,14 @@ The learn project includes parameter estimation and a regulatory network learnin
After building the executable jar, you need to invoke the following command:
```
java -jar target/iBioSim-learn-3.0.0-SNAPSHOT-jar-with-dependencies.jar [-e -l] <input file> <directory>
java -jar target/iBioSim-learn-3.0.0-SNAPSHOT-jar-with-dependencies.jar [-e] [-l ...] input directory
```
where
* <input file> is an arbitrary SBML file
* <directory> is the location of the time-series data
* -e is a flag to perform parameter estimation. Default is GeneNet.
* -l is a flag to specify which parameters need to be estimated.
* ```input``` is an arbitrary SBML file
* ```directory``` is the location of the time-series data
* ```-e``` is a flag to perform parameter estimation. Default is GeneNet.
* ```-l ...``` is a flag to specify which parameters need to be estimated, where the value is a comma separated list of parameter ids (e.g., "p1,p2,p3").