umap: umap

In kendomaniac/rCASC: rCASC reproducible Classification Analysis of Single Cell Sequencing Data

umap

Description

This function executes a ubuntu docker that performs umap visualization

Usage

umap(
  group = c("sudo", "docker"),
  scratch.folder,
  file,
  separator,
  seed,
  epochs
)

Arguments

group	a character string. Two options: sudo or docker, depending to which group the user belongs
scratch.folder	a character string indicating the path of the scratch folder
file	a character string indicating the path of the count matrix
separator	separator used in count file, e.g. '\t', ','
seed	number for reproducibility
epochs	number of epochs for umap

Value

plot

Author(s)

Luca Alessandri, alessandri [dot] luca1991 [at] gmail [dot] com, University of Torino

Examples

## Not run: 
dir.create("scratch")
umap(group=c("sudo"), scratch.folder=paste(getwd(),"/scratch",sep=""), file=paste(getwd(),"/setA.csv",sep=""),separator=",",seed=111,epochs=1000)

## End(Not run)

kendomaniac/rCASC documentation built on July 3, 2024, 6:05 a.m.