calc_avg_module_zscore: calc_avg_module_zscore - calculate average module z score of...

In MattPM/scglmmr: Sample-level Single-cell Generalized Linear Multilevel Models in R

calc_avg_module_zscore - calculate average module z score of list of modules on a PseudobulkList This is equivalent to the average z score method used in in Kotliarov et. al. Nature Med 2020 zscore is calculated across both genes and samples it is adopted below to run on 'pseudobulk lists' (average "averagemetacell.list" or pseudobulk list created by PseudobulkList) this small wrapper is called by the AverageSampleModuleZscore. calculate signature score for each cell type, BTM, Subject function input = named list of modules, dataframe with subject as rows genes as columns

Description

calc_avg_module_zscore - calculate average module z score of list of modules on a PseudobulkList This is equivalent to the average z score method used in in Kotliarov et. al. Nature Med 2020 zscore is calculated across both genes and samples it is adopted below to run on 'pseudobulk lists' (average "averagemetacell.list" or pseudobulk list created by PseudobulkList) this small wrapper is called by the AverageSampleModuleZscore. calculate signature score for each cell type, BTM, Subject function input = named list of modules, dataframe with subject as rows genes as columns

Usage

calc_avg_module_zscore(module.list, average.data.frame)

Arguments

module.list	list of modules
average.data.frame	- this is created in AverageSampleModuleZscore

Value

see AverageSampleModuleZscore

Examples

## Not run: 
results = calc_avg_module_zscore(module.list = btm, average.data.frame = av_df)

## End(Not run)
# Average Module sample Z score

MattPM/scglmmr documentation built on April 26, 2024, 12:55 a.m.