> For the complete documentation index, see [llms.txt](https://kb.ezbiocloud.net/home/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://kb.ezbiocloud.net/home/protocols/shotgun-microbiome/analyze-datasets/beta-diversity.md).

# Beta Diversity

Let’s run a **Beta Diversity** analysis of the profiles in this dataset from the Parkinson’s disease study.

## Select ‘**Beta Diversity**‘ <a href="#span-classeztocsection-idselecte28098betadiversitye28098spanselect-strongbeta-diversitystrong-span-c" id="span-classeztocsection-idselecte28098betadiversitye28098spanselect-strongbeta-diversitystrong-span-c"></a>

<figure><img src="/files/mP0nnf7NtUxOLojc5LKl" alt=""><figcaption></figcaption></figure>

## Select your dataset <a href="#span-classeztocsection-idselectyourdatasetspanselect-your-dataset-span-classeztocsectionendspan" id="span-classeztocsection-idselectyourdatasetspanselect-your-dataset-span-classeztocsectionendspan"></a>

<figure><img src="/files/7uv45oSpAyYkhTtHcESi" alt=""><figcaption></figcaption></figure>

## Fill in details for future referencing <a href="#span-classeztocsection-idfillindetailsforfuturereferencingspanfill-in-details-for-future-referencing" id="span-classeztocsection-idfillindetailsforfuturereferencingspanfill-in-details-for-future-referencing"></a>

<figure><img src="blob:https://doc.ezbiocloud.net/5895bd30-b779-4874-9419-5f00429c638c" alt=""><figcaption></figcaption></figure>

## Input the arguments according to your desired output <a href="#span-classeztocsection-idinputtheargumentsaccordingtoyourdesiredoutputspaninput-the-arguments-accord" id="span-classeztocsection-idinputtheargumentsaccordingtoyourdesiredoutputspaninput-the-arguments-accord"></a>

<figure><img src="/files/JR9Awnb61yvkfYUoEWIY" alt=""><figcaption></figcaption></figure>

## Select ‘Run Analysis’ <a href="#span-classeztocsection-idselecte28098runanalysisspanselect-run-analysisspan-classeztocsectionendspan" id="span-classeztocsection-idselecte28098runanalysisspanselect-run-analysisspan-classeztocsectionendspan"></a>

<figure><img src="/files/9VPP7dK5xxQkg02wrUnU" alt=""><figcaption></figcaption></figure>

## Wait for the analysis to complete <a href="#span-classeztocsection-idwaitfortheanalysistocompletespanwait-for-the-analysis-to-completespan-class" id="span-classeztocsection-idwaitfortheanalysistocompletespanwait-for-the-analysis-to-completespan-class"></a>

<figure><img src="/files/jmYyDIbXe4DIFS991S2o" alt=""><figcaption></figcaption></figure>

<figure><img src="/files/k6TxZxE13XtB7ZDL83vQ" alt=""><figcaption></figcaption></figure>