GettsnesignatureSuper: GettsnesignatureSuper

In chenweng1991/EZsinglecell:

Description

This function plot tsne or PCA stained by gene relative expression

Usage

GettsnesignatureSuper(object, object.all, signiture = c("INS", "RBP4",
  "FFAR4", "ID1", "ID2", "ID3", "DNAJB1"), doPCA = F, dotSNE = T,
  usePC34 = F, extratitle = "", toreturn = F, dotsize = 0.3,
  buttomgrey = T, nolegend = T, highcolor = "red")

Arguments

object	The seurat object that has been analyzed.
object.all	The total object for normalization. Usually it is the same as object
signiture	a vector of gene names that are intersting to be checked on tsne by color intensity
doPCA	if ture then stain on PCA12 plot. default is F
dotSNE	if ture then stain on tsne plot. default is T
usePC34	if true, plot the PC34 istead of PC12. Default is F
extratitle	A string that can be added to the title of figures. default is ""
dotsize	The dot size for the figures, default is 0.3
buttomgrey	if true, The cells with no expression set color as grey
nolegend	if true, no color intensity legend is put
highcolor	The color for highest expression, A color spectrum is formed between "grey" to the color set. Default is red

Value

draw figures. if toreturn=T, then return a list of figures

Examples

Fullplot_v2(S7rock_1.ob,"S7rock_1.ob.pdf",topgene=NULL,resolusion="res.0.6",signiture=c("INS","GCG","SST","PPY","KRT19","COL1A2","REG1A","DNAJB1","GHRL"))

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