annotate_clusters: Provide annotations for each cluster, based on intensity...

In maxmeyl/Excyte: Exhaustive eXploration of CYTometry data

Description

Provide annotations for each cluster, based on intensity distribution of all events

Usage

annotate_clusters(
  phenograph_obj,
  channels = "all",
  cluster_to_use = "all",
  threshold = c("median", "tertile", "quartile")[1],
  positivity_threshold = 0.5,
  channel_names = c("channel_only", "marker_only", "both")[3]
)

Arguments

phenograph_obj	list containing result of phenograph clustering and processed fcs
channels	vector of channels to use, default uses all channels
cluster_to_use	vector of cluster to use, default uses all clusters
threshold	character defining if threshold should be caracterized as the median, tertile or quartile
positivity_threshold	numeric value between 0 and 1 defining the percentage of cells needed to call positivity to a threshold
channel_names	character, edit channels names accordingly

maxmeyl/Excyte documentation built on Nov. 17, 2020, 8:09 a.m.