---
name: "gmt-music-plot-mutation-relation"
section: "1p"
platform: "linux"
package: "libgenome-model-tools-music-perl"
version: "0.04-4"
release: "Debian 10 (Buster)"
platforms: ["linux"]
url: "https://new.carta.tech/gmt-music-plot-mutation-relation"
---

# gmt-music-plot-mutation-relation(1p)

Makes plots for results from the mutation-relation tool

## gmt music plot mutation-relation

## NAME

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

## VERSION

This document describes gmt music plot mutation-relation version 0.04 (2018-07-05 at 09:17:13)

## SYNOPSIS

gmt 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.