Man pages sections > man1 > genome-music-plot-mutation-relation

genome music plot mutation-relation - Makes plots for results from the

GENOME-MUSIC-PLOT-MUTATION-RELATION(1p) User Contributed Perl Documentation GENOME-MUSIC-PLOT-MUTATION-RELATION(1p)

genome music plot mutation-relation

NAME

genome music plot mutation-relation - Makes plots for results from the mutation-relation tool

VERSION

This document describes genome music plot mutation-relation version 0.04 (2016-01-01 at 17:57:59)

SYNOPSIS

genome music plot mutation-relation --input-matrix=? --output-pdf=? [--skip-zero-mut-samples] [--genes-to-plot=?] [--plot-genes-in-order-listed]

REQUIRED ARGUMENTS

input-matrix String
A gene/sample matrix generated by the mutation-relation tool
output-pdf String
An output pdf file to draw the plot to

OPTIONAL ARGUMENTS

skip-zero-mut-samples Boolean
Don't plot samples that have no mutations on any gene being plotted
 
Default value 'true' if not specified
noskip-zero-mut-samples Boolean
Make skip-zero-mut-samples 'false'
genes-to-plot String
Comma-separated list of genes to plot (example: DNMT3A,NPM1)
plot-genes-in-order-listed Boolean
Plot the genes in the order that they're listed. Default is to plot them in descending order by number of mutations
 
Default value 'false' (--noplot-genes-in-order-listed) if not specified
noplot-genes-in-order-listed Boolean
Make plot-genes-in-order-listed 'false'

DESCRIPTION

Given a matrix generated using "music mutation-relation --mutation-matrix-file", this tool will generate a plot that highlights mutual exclusivity or concurrence between the mutation status of a predefined set of genes.
2016-01-01 perl v5.22.1