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

# R\_mds(1)

project distance matrix into lower number of dimensions

## NAME

R\_mds - project distance matrix into lower number of dimensions

## SYNOPSIS

**R\_mds** *-k \<filtered\_kmers.txt\> -p \<pheno\_file\>*

## DESCRIPTION

Projects distance matrix into lower number of dimensions Requires R and rhdf5 to be installed, see github wiki for more details

## OPTIONS

### Required

- **-d**, **--dist**

  Distance matrix output by kmds

- **-p**, **--pheno**

  Phenotype file used by seer

### Optional

- **-o**, **--output**

  Output prefix (default 'all\_structure')

- **--pc**

  Number of dimensions to project into (default 3)

- **-R**

  R executable (default 'which R')

- **-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.