https://github.com/almaaslab/elixir-galaxy-tools-systemsbiology

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CITATION.cff file
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codemeta.json file
Found codemeta.json file
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.zenodo.json file
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DOI references
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Scientific vocabulary similarity
Low similarity (4.1%) to scientific vocabulary

Last synced: 10 months ago · JSON representation

Repository

Created over 1 year ago · Last pushed over 1 year ago

Readme License

Repository holding the contributions of the Systems Biology members of WP5 of ELIXIR 3

gemextractexchange: Extracts the exchange reactions of the provided gem as a CSV, which can then be modified and used as an input to modify the environment for the other GEM modules
gemcheckmemote: Runs memote on provided GEM, returning snapshot report
gemeschervisualization: Runs Escher with specified parameters, giving a modifiable html file with an overview of the metabolic network
gemfluxdistribution: Performs FBA to solve the provided model with the provided parameters, returning a flux distribution in the form of a CSV
gemfluxvariability_analysis: Performs FVA to return the reachable flux ranges for the proivded model and parameters
gemphenotypephase_plane: Runs a phenotype phase plane analysis for the provided model and parameters, showing how the model objective scales with the specified reactions
gem_knockout: Performs single or double knockout analysis for the provided model and parameters, returning all flux values for WT and KO for every (combination of) gene knockout

Network Systems Biology