Calculate group means from the mmo object

This function calculates and returns a dataframe of mean feature values for each group in the mmo object, with options for normalization and filtering. Use SwitchGroup() to change the grouping variable before running this function.

Usage

GetGroupMeans(
  mmo,
  normalization = "None",
  filter_feature = FALSE,
  feature_list = NULL,
  filter_group = FALSE,
  group_list = NULL
)

Arguments

mmo

The mmo object

normalization

The normalization method to use. Options are 'None', 'Log', 'Meancentered', or 'Z'

filter_feature

Boolean to filter features based on a provided list (default: FALSE)

feature_list

A vector of feature names to filter (default: NULL)

filter_group

Boolean to filter groups based on a provided list (default: FALSE)

group_list

A vector of group names to filter (default: NULL)

Value

A data frame containing the mean feature values for each group

Examples

if (FALSE) {
group_means <- GetGroupMeans(mmo, normalization = 'Log')
group_means <- GetGroupMeans(mmo, 
 normalization = 'None', 
 filter_feature = TRUE, feature_list = Glucosinolates
) # if Glucosinolates is a vector of feature names
group_means <- GetGroupMeans(mmo, 
 normalization = 'Z', 
 filter_group = TRUE, 
 group_list = c("Control", "Treatment1")
)
group_means <- GetGroupMeans(mmo, 
 normalization = 'Meancentered', 
 filter_feature = TRUE, feature_list = Glucosinolates, 
 filter_group = TRUE, group_list = c("Control", "Treatment1")
) # if Glucosinolates is a vector of feature names   
}