heatmaply: Function to produce an interactive heatmap using plot.ly

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

Function to produce an interactive heatmap using plot.ly

Description

This function generates an heatmap using a count table and a specific gene list

Usage

heatmaply(
  group = c("docker", "sudo"),
  scratch.folder,
  count.table,
  gene.list,
  output.folder,
  separator = c("TAB", "COMMA", "SPACE"),
  status = c("raw", "log"),
  color.palette = c("viridis", "BrBG", "magma", "plasma", "cividis")
)

Arguments

group	a character string. Two options: "sudo" or "docker", depending to which group the user belongs
scratch.folder	a character string indicating the scratch folder where docker container will be mounted
count.table	a character string indicating the path of the counts table file
gene.list	a character string indicating the path of the file containing the genes to include in the heatmap
output.folder	a character string indicating the path of the output folder
separator	a character string indicating the separator character in the count table. Allowed characters are TAB, COMMA and SPACE
status	a character string, 'raw' if the data are raw counts, 'log' otherwise
color.palette	a string indicating the color palette to be used in the heatmap. Available palettes are Viridis, BrBG, magma, plasma and cividis

Value

A html file containing the interactive heatmap produced using plot.ly

Author(s)

Nicola Licheri, nicola [dot] licheri [at] unito [dot] it, University of Turin

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