corr_datasets_by_imps: corr_datasets_by_imps

In shihuang047/crossRanger: Cross-Application of Ranger Models using microbiome data

corr_datasets_by_imps

Description

The correlation of importance scores between datasets

Usage

corr_datasets_by_imps(feature_imps_list, ranked = TRUE, plot = FALSE)

Arguments

feature_imps_list	a list of feature importance scores from the output of rf_reg.by_datasets or rf_clf.by_datasets
ranked	if transform importance scores into rank for correlation analysis
plot	if plot the correlation matrix

Author(s)

Shi Huang

See Also

ranger rf_clf.by_datasets rf_reg.by_datasets

Examples

df <- data.frame(rbind(t(rmultinom(14, 14*5, c(.21,.6,.12,.38,.099))),
            t(rmultinom(16, 16*5, c(.001,.6,.42,.58,.299))),
            t(rmultinom(30, 30*5, c(.011,.6,.22,.28,.289))),
            t(rmultinom(30, 30*5, c(.091,.6,.32,.18,.209))),
            t(rmultinom(30, 30*5, c(.001,.6,.42,.58,.299)))))
metadata<-data.frame(f_s=factor(c(rep("A", 15), rep("B", 15), rep("C", 15), rep("D", 15),
                                  rep("A", 15), rep("B", 15), rep("C", 15), rep("D", 15))),
                     f_c=factor(c(rep("C", 60), rep("D", 60))),
                     f_d=factor(c(rep("A", 30), rep("B", 30), rep("C", 30), rep("D", 30))),
                     age=c(1:60, 2:61)
                     )
reg_res<-rf_reg.by_datasets(df, metadata, s_category='f_d', c_category='age')
corr_datasets_by_imps(reg_res$feature_imps_list, plot=TRUE)
clf_res<-rf_clf.by_datasets(df, metadata, s_category='f_s', c_category='f_c')
feature_imps_list <- lapply(clf_res$feature_imps_list, function(x) x[,"rf_imps"])
names(feature_imps_list) <- levels(metadata[, 'f_s'])
corr_datasets_by_imps(feature_imps_list, plot=TRUE)

shihuang047/crossRanger documentation built on Feb. 7, 2023, 10:03 p.m.