Tree.build.prepare: Tree.build.prepare

Description Usage Arguments Value Examples

View source: R/TreCCAtree.R

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

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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

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 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.