Turn on suggestions

Auto-suggest helps you quickly narrow down your search results by suggesting possible matches as you type.

Showing results for

- JMP User Community
- :
- Discussions
- :
- which distance does JMP use in clustering?

- Subscribe to RSS Feed
- Mark Topic as New
- Mark Topic as Read
- Float this Topic for Current User
- Bookmark
- Subscribe
- Printer Friendly Page

Highlighted
##

- Mark as New
- Bookmark
- Subscribe
- Mute
- Subscribe to RSS Feed
- Get Direct Link
- Email to a Friend
- Report Inappropriate Content

which distance does JMP use in clustering?

Jun 25, 2020 7:34 AM
(351 views)

Hello everybody.

I'm trying to understand which distance does JMP use in hierarchical clustering: the documentation in https://www.jmp.com/support/help/en/15.1/index.shtml#page/jmp/distance-method-formulas.shtml#ww17780... seems to say "squared euclidean distance" but if I save the distance matrix (after clustering) what I get is the euclidean distance (not squared).

And what about the k-means method? It should use the euclidean distance, but I couldn't find the formulas.

Thank you in advance.

3 REPLIES 3

Highlighted
##

- Mark as New
- Bookmark
- Subscribe
- Mute
- Subscribe to RSS Feed
- Get Direct Link
- Email to a Friend
- Report Inappropriate Content

Re: which distance does JMP use in clustering?

Hi @francesco_della ,

JMP uses Euclidean Distance for the initial distance matrix calculation between observations and then the method chosen for calculating distances between the clusters. This is true for any of the Clustering methods within JMP. The only exception is if you provide the data as a distance matrix and choose the data is distance matrix option in the dialog for Hierarchical Clustering.

For k- Means, the JMP help refers to the SAS FASTCLUS Procedure documentation found here.

Hope that helps.

Chris Kirchberg

Principal Systems Engineer, Life Sciences - JMP Global Technical Enablement

SAS Institute, Inc. - Denver, CO

Tel: +1-919-531-9927 ▪ Mobile: +1-303-378-7419 ▪ E-mail: chris.kirchberg@jmp.com

JMP – A Division of SAS Institute | www.jmp.com

Principal Systems Engineer, Life Sciences - JMP Global Technical Enablement

SAS Institute, Inc. - Denver, CO

Tel: +1-919-531-9927 ▪ Mobile: +1-303-378-7419 ▪ E-mail: chris.kirchberg@jmp.com

JMP – A Division of SAS Institute | www.jmp.com

Highlighted
##

- Mark as New
- Bookmark
- Subscribe
- Mute
- Subscribe to RSS Feed
- Get Direct Link
- Email to a Friend
- Report Inappropriate Content

Re: which distance does JMP use in clustering?

I was just confused because the formula in the documentation definitely shows the SQUARED euclidean distance

thank you again, regards

Highlighted
##

- Mark as New
- Bookmark
- Subscribe
- Mute
- Subscribe to RSS Feed
- Get Direct Link
- Email to a Friend
- Report Inappropriate Content

Re: which distance does JMP use in clustering?

Created:
Jul 7, 2020 7:43 AM
| Last Modified: Jul 7, 2020 7:44 AM
(202 views)
| Posted in reply to message from francesco_della 06-25-2020

No problem. The squared distance is used in the subsequent between cluster distance calculations in some methods, but the initial distance matrix between the observations is not squared.

Best,

Chris Kirchberg

Principal Systems Engineer, Life Sciences - JMP Global Technical Enablement

SAS Institute, Inc. - Denver, CO

Tel: +1-919-531-9927 ▪ Mobile: +1-303-378-7419 ▪ E-mail: chris.kirchberg@jmp.com

JMP – A Division of SAS Institute | www.jmp.com

Principal Systems Engineer, Life Sciences - JMP Global Technical Enablement

SAS Institute, Inc. - Denver, CO

Tel: +1-919-531-9927 ▪ Mobile: +1-303-378-7419 ▪ E-mail: chris.kirchberg@jmp.com

JMP – A Division of SAS Institute | www.jmp.com

- Tags:
- s