---
name: "mapping_to_phandango"
section: "1"
platform: "linux"
package: "seer"
version: "1.1.4-8+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/mapping_to_phandango"
---

# mapping\_to\_phandango(1)

create a plot file for visualisation in phandango

## NAME

mapping\_to\_phandango - create a plot file for visualisation in phandango

## SYNOPSIS

**mapping\_to\_phandango** *-s \<sam\_file\> -k \<seer\_kmers\> \> phandango.plot*

## DESCRIPTION

Creates a plot file for visualisation in phandango

## OPTIONS

### Required

- **-s**, **--sam**

  Sam file of kmers mapped to reference (unsorted)

- **-k**, **--kmers**

  Kmers that were mapped

### Optional

- **-m**, **--map**

  Minimum mapping quality

- **-h**, **--help**

  Displays this message

## AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.