Description Usage Arguments Details Value
View source: R/convenience_wrappers.R
This function calculates fluxes folds
times with shuffled versions of the metabolic model.
This is designed to detect and quantify underdetermined fluxes.
1 | find_flux_variability_df(reaction_table, folds = 10, do_minimization = TRUE)
|
reaction_table |
a data frame representing the metabolic model |
folds |
number of times to calculate fluxes |
do_minimization |
toggle to uniformly minimize all non-objective fluxes after finding the objective |
This function uses ROI, so to solve models, you will need a solver plugin for ROI. Probably the easiest one to install is ROI.plugin.glpk.
To install this in Linux, run sudo apt-get install libglpk-dev
in a terminal, and then run install.packages('ROI.plugin.glpk')
in R.
reaction_table with two added columns: sd (the standard deviation of fluxes found) and flux (a typical flux) from this distribution
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