export the virtual permutation result as csv table files

make_exports {bnlearn}

R Documentation

export the virtual permutation result as csv table files

Description

Usage

make_exports(results, dir,
    pathway.info = NULL,
    top.n = 50);

Arguments

results

a collection of the in silico perturbation result, which can be a vector of the InterventionResult object, or a pipeline object that produces a set of the InterventionResult data.

dir

the output directory for save the generated csv table files, this directory will be created if it is not exists. [as string]

pathway.info

an optional tuple list of the MetabolicPathway knowledge data: the slot key of the list is the pathway id and the slot value is the corresponding pathway object, this parameter is used for run the pathway level analysis of the perturbation result. [as list]

top.n

the top n affected genes for export in the intervention ranking table, by default is 50. [as integer]

env

the R# runtime environment object. [as Environment]

Details

the generated csv table files in the given output directory:

foldchange_matrix.csv, percentchange_matrix.csv, significance_matrix.csv, zscore_matrix.csv, wildtype_means_matrix.csv, mutant_means_matrix.csv;
comprehensive_comparison.csv, condition_similarity.csv;
intervention_ranking.csv: the top n affected genes of each perturbation condition;
pathway_summary.csv and cross_impact_matrix.csv: these two table files will be generated only when the pathway_info parameter is provided.

Authors

biosystem

Value

TRUE will be returns if all of the result table files have been exported into the given directory successfully;

this function returns a R# error message object if the given data can not be cast to a collection of the InterventionResult data.

clr value class

any kind

[Package bnlearn version 1.0.0.0 Index]