Tree.build.prepare: Tree.build.prepare

In chenweng1991/EZsinglecell:

Description

This function is the first function to start calculate the subtree from dgeA, dgeB. This basically do the clustering and fullplot at low resolution

Usage

Tree.build.prepare(dge1, dge2, name1, name2, first.reso = c(0.03, 0.03),
  treemake.dir = "./")

Arguments

dge1	the dge file (usually from earlier timepoint), either raw or processed is acceptable
dge2	the dge file (usually from later timepoint), either raw or processed is acceptable
name1	The name for the dge1 (usually from earlier timepoint)
name2	The name for the dge2 (usually from later timepoint)
first.reso	The cluster resolution for dge1 and dge2 respectively. A vector of two number , for example c(0.03,0.03)
treemake.dir	A path. The workspace where the whole tree making project is on

Value

A list of stuff including seurat clutsering result; fullplots; the resolution used and the path

Examples

 S4_S5ROCK.tree.prep<-Tree.build.prepare(dge1=s4.B.dge,dge2=S5.ROCKII.dge,name1="S4.B",name2="S5.rock",first.reso=c(0.03,0.03),treemake.dir="/mnt/NFS/homeGene/JinLab/cxw486/Dropseq/Entrance/Esderived/Esdrived_DGE/AttemptFrom17.8.28/ROCKII/Treemake/")

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