write_results.MAST: Write MAST model fitting results to file(s)

In mjdufort/MASTtools: Simplify use of MAST

Description

Output file(s) with results from MAST model fitting

Usage

write_results.MAST(lfc_result,
                   write_full_results=TRUE,
                   write_sigGenes=TRUE, thresholds.adj.P.Val=0.05,
                   write_topGenes=TRUE, n_topGenes=100,
                   file_prefix, test_id)

Arguments

lfc_result	The fit results, generally the output of MASTtools::getModelResults.MAST
write_full_results	logical, whether to output the full results data frame to a file. Defaults to TRUE.
write_sigGenes	logical, whether to output a list of the genes with adjusted p-values below a threshold. Defaults to TRUE.
thresholds.adj.P.Val	numeric, a vector of adjusted p-value thresholds to use for gene significance cutoffs. One file is generated for each threshold value. Defaults to 0.05. Ignored if write_sigGenes == FALSE
write_topGenes	logical, whether to output a sorted list of the genes with strongest significance. Defaults to TRUE.
n_topGenes	numeric, a vector of numbers of most significant genes to output. One file is generated for each threshold value. Defaults to 100. Ignored if write_topGenes == FALSE
file_prefix	character, the path to the file location. "MAST_..." will be appended to it.
test_id	character, the name of the model test, to be included in the filename.

mjdufort/MASTtools documentation built on June 29, 2019, 4:01 p.m.