> 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/alpha-diversity.md).

# Alpha Diversity

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

## Select ‘Alpha Diversity’ <a href="#span-classeztocsection-idselecte28098alphadiversityspanselect-alpha-diversity-span-classeztocsection" id="span-classeztocsection-idselecte28098alphadiversityspanselect-alpha-diversity-span-classeztocsection"></a>

<figure><img src="https://820779907-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FDWKOAVP0eaMhg1acSkor%2Fuploads%2FlIUlo4aZX3V7KbPq6v0H%2Fimage.png?alt=media&amp;token=524f0cf9-9fc1-4568-a90d-74d96eae0cd0" 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="https://820779907-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FDWKOAVP0eaMhg1acSkor%2Fuploads%2FYJeh1N8J3NbAIZiSlcoR%2Fimage.png?alt=media&amp;token=e1ee499b-a860-4c77-afb0-218e5a36eb28" 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>

## 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="https://820779907-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FDWKOAVP0eaMhg1acSkor%2Fuploads%2F8Ag6agZqHtvmuWHHG8Vt%2Fimage.png?alt=media&amp;token=08a671fa-9f2f-44c3-b487-20ce513904cb" 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="https://820779907-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FDWKOAVP0eaMhg1acSkor%2Fuploads%2FLbC2VIn0JRAYFWIgKlS9%2Fimage.png?alt=media&amp;token=7dc7c24e-fb71-45ff-bd8d-738c9197530e" 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="https://820779907-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FDWKOAVP0eaMhg1acSkor%2Fuploads%2F633LGCDI29c0EQ2n8qbP%2Fimage.png?alt=media&amp;token=03578ef4-591d-41d1-9613-843eb107418f" alt=""><figcaption></figcaption></figure>

<figure><img src="https://820779907-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FDWKOAVP0eaMhg1acSkor%2Fuploads%2FQtO5o5LGRgKUPndhpCMX%2Fimage.png?alt=media&amp;token=3f62017f-e41c-4adf-9818-144eea46fd1e" alt=""><figcaption></figcaption></figure>