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Boxplot of cluster enrichment in a quantitative feature

boxplot_cluster.Rd

Produce boxplots to visualize the distribution of cell values according to the selected feature A png figure for each cluster is saved in dir_out.

Usage

boxplot_cluster(
  scMuffinList = NULL,
  feature_name = NULL,
  partition_id = NULL,
  dir_out = "./",
  n_features = 10,
  only_pos_nes = TRUE,
  do_scale_features = FALSE,
  cex.axis = 0.8,
  width = 180,
  height = 180,
  units = "mm",
  res = 300
)

Arguments

scMuffinList

scMuffinList object

feature_name

the names of the feature that should be considered. It must be one of names(scMuffinList)

partition_id

one among the partitions

dir_out

output directory

n_features

maximum number of features that will be shown

only_pos_nes

whether to consider only positive enrichments

do_scale_features

whether to scale features

cex.axis

cex.axis

width

image width

height

image height

units

image units

res

image resolution