Blacklist_Groups: Blacklist Groups

In EDePasquale/DoubletDecon: A Package to Identify Doublets and Doublet Clusters Based on Deconvolution Analysis and Unique Gene Expression

Description

This function is used for the calculation of blacklisted medoids and groups. It calculates medoids. It performs medoid correlations. It creates the binary correlation table between medoids, otherwise known as the blacklist. It makes a blacklist heatmap. It makes a blacklist heatmap. It makes new medoids based on blacklisted combined clusters. It makes a new groups file based on the blacklisted combined clusters.

Usage

Blacklist_Groups(data, groups, rhop, centroid_flag, log_file_name)

Arguments

data	Processed data from Clean_Up_Input (or Remove_Cell_Cycle)
groups	Processed groups file from Clean_Up_Input
rhop	x in mean+x*SD to determine upper cutoff for correlation in the blacklist. Default is 1.
centroid_flag	use centroids if data is sparse
log_file_name	used for saving run notes to log file

Value

newMedoids - new medoids data.frame for the new combined blacklisted clusters.

newGroups - new groups file containing cluster assignment based on new combined blacklisted clusters.

EDePasquale/DoubletDecon documentation built on Dec. 3, 2020, 10:44 p.m.