ucl-cssb / mimic Goto Github PK

    # FIXME: see to delete this before merging

This section of the code should be deleted as it is not needed after full implementation

Describe the bug
the current gMLV model assumes metabolite production rate is proportional to x rather than dx/dt. We should allow this somehow (though inference will change).

Things we need to consider for our GitHub Repository:

• make tags for different release versions

• make PyTests for this project

• make Codecov coverage test

• add Licence.md

Make tags for different release versions to keep track of what version of the code was used to generate a given result. This will be useful for reproducing results and for keeping track of what version of the code was used to generate a given result.

Generate a base class for all simulations and inferences

Is your feature request related to a problem? Please describe.
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Describe the solution you'd like
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Describe alternatives you've considered
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Additional context
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Describe the bug
Would be good to look at the perturbations in the gMLV model as they don't seem to have an effect at the moment.

To Reproduce
You can see this in the gLV examples.

# FIXME: add version to the documentation and how to automatically update it

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Make Codecov coverage test for the project and add it to the CI pipeline.

Describe the bug
Also not sure the multi constraint lasso is working or just takes ages.

Description

Create PyTests for this project to test the functionality of the code.

            # FIXME: make these arguments specifiable in the parameters.json file file

make the trace parameter specifiable in the parameters.json file file

Is your feature request related to a problem? Please describe.
we should run one gLV example with lots of timepoints, replicates and ensure we get good parameter estimation.

Choose a License for this repository and add it to the repository.