subSetCell: Subset Cell

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

Subset Cell

Description

This function executes a ubuntu docker that subset a matrix

Usage

subSetCell(
  group = c("sudo", "docker"),
  scratch.folder,
  file,
  separator,
  cells.number
)

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 file, with file name and extension included
separator,	separator used in count file, e.g. '\t', ','
cells.number,	number of cells to be extracted

Value

subsetted matrix

Author(s)

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

Examples

## Not run: 
system("wget http://130.192.119.59/public/annotated_setPace_10000_noC5.txt.zip")
unzip("annotated_setPace_10000_noC5.txt.zip")

subSetCell<- function(group="docker", scratch.folder="/data/scratch", 
                       file=paste(getwd(), "annotated_setPace_10000_noC5.txt",sep="/"), 
                       separator="\t", cells.number=200)

## End(Not run)

kendomaniac/CASC documentation built on Oct. 4, 2023, 11:10 a.m.