prepare4expands: A function to handle a docker containier preparing the file...

In kendomaniac/docker4seq: Running NGS computing demanding applications, e.g reads mapping and counting, wrapped in docker containers

A function to handle a docker containier preparing the file needed for expanse

Description

This function executes a ubuntu docker that produces the cnv.txt and snv.txt needed for expanse

Usage

prepare4expands(group = c("sudo", "docker"), data.folder)

Arguments

group	a character string. Two options: sudo or docker, depending to which group the user belongs
data.folder	a character string indicating the folder where input data are located and where output will be written

Value

cnv.txt and snv.txt

Author(s)

Raffaele Calogero, raffaele.calogero [at] unito [dot] it, University of Torino

Examples

## Not run: 
    system("wget http://130.192.119.59/public/prepare4expanse.zip")
    system("unzip prepare4expanse.zip")
    prepare4expands(group="docker", data.folder=paste(getwd(), "prepare4expanse", sep="/"))

## End(Not run)

kendomaniac/docker4seq documentation built on April 8, 2024, 5:39 p.m.