dist.matrix.prep: dist.matrix.prep

In chenweng1991/EZsinglecell:

Description

This is an important internal function to calculate distance matrix, it is used in Tree.build.1 and Tree.build.2nd.clustering

Usage

dist.matrix.prep(binary.primary, datainfo.col1 = c("res.0.6", "nUMI",
  "Sample"), cluster.col1 = "res.0.6", datainfo.col2 = c("res.0.6",
  "nUMI", "Sample"), cluster.col2 = "res.0.6", res1 = "res.0.06",
  res2 = "res.0.06", datainfo.col3 = c("res.0.6", "nUMI", "Sample"))

Arguments

binary.primary	This is the primary clustering result that can be retrieved from Tree.build.prepare object. (Because Tree.build.prepare mainly do the primary clustering.)The input here is tree.prep.ob$primary.total
datainfo.col1	default is c("res.0.6","nUMI","Sample")
cluster.col1	default is "res.0.6"
datainfo.col2	default is c("res.0.6","nUMI","Sample")
cluster.col2	default is "res.0.6"
res1	default is "res.0.06
res2	default is "res.0.06"
datainfo.col3	c("res.0.6","nUMI","Sample")

Value

This will return an object used for Tree.build.1

Examples

 	total.dist.matrxes<-dist.matrix.prep(primary.total,datainfo.col1=c(paste("res.",first.reso[1],sep=""),"nUMI","Sample"),cluster.col1=paste("res.",first.reso[1],sep=""),datainfo.col2=c(paste("res.",first.reso[2],sep=""),"nUMI","Sample"),cluster.col2=paste("res.",first.reso[2],sep=""),res1=paste("res.",first.reso[1],sep=""),res2=paste("res.",first.reso[2],sep=""))

chenweng1991/EZsinglecell documentation built on July 11, 2020, 3:23 p.m.