heatmapBase: hfc, heatmap for clustering

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

hfc, heatmap for clustering

Description

This function generate heatmap and other plot based on clustering and on a specific gene list

Usage

heatmapBase(
  group = c("sudo", "docker"),
  scratch.folder,
  file,
  status = 0,
  lower.range = -1,
  upper.range = 1
)

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 counts.table name and extension included
status	0 if is raw count, 1 otherwise
lower.range	the lower range of signal in the heatmap.
upper.range	the upper range of signal in the heatmap.

Value

A heatmap.

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/heatmap_test.zip")
system("unzip heatmap_test.zip")
setwd("heatmap_test")
heatmapBase(group="docker",scratch.folder="/data/scratch",file=paste(getwd(),"DEfiltered__log2TPM.txt", sep="/"), status=1, lower.range=-1, upper.range=1)

## End(Not run)

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