----- Forwarded message from andrea cardini <[email protected]> -----
Date: Mon, 18 Feb 2013 03:42:18 -0500
From: andrea cardini <[email protected]>
Reply-To: andrea cardini <[email protected]>
Subject: Re: calculating procrustis distance matrix
To: [email protected]
Dear Shobnom,
you'll find quite a bit of stuff in the
literature on the pros and cons of Mantel tests.
If that's what you really need and want to do,
besides TPSSmall or using PAST, you can get the distances also in Morphologika.
I would:
1) export the raw data (or the shape coordinates
- for this aim it won't make a difference) from MorphoJ;
2) convert the txt file in nts: change the
extension, remove the first column with the ID
and also the first row with variables name, add a
first line with: 1 numberofspecimens numberofvariavles(i.e.,landmarksby2) 0;
3) import the nts file in Morphologika, do the
GPA + PCA and then press the save button: you'll
get a CSV file with everything including Proc. distances.
Good luck.
Cheers
Andrea
At 05:11 17/02/2013, you wrote:
>----- Forwarded message from Shobnom Ferdous
><[email protected]> -----
>
> Date: Fri, 15 Feb 2013 20:33:10 -0500
> From: Shobnom Ferdous <[email protected]>
> Reply-To: Shobnom Ferdous <[email protected]>
> Subject: calculating procrustis distance matrix
> To: "[email protected]" <[email protected]>
>
>Hello Morphometricians
>I am trying to run a Mantel test using patristic
>distance and Procrustes distance usning a data
>set. I got 14 species and got patristic distance
>matrix from my molecular data set. I am trying
>to use procrustis distance from MorphoJ program
>where I got same 14 species and using 17
>landmarks (2D). I am trying to use Passage
>program to run the Mantel test. Can any one tell
>me how can I get a distance matrix of procrustis
>coordinates which would be suitable with my
>patristic distance matrix with 14 species. I can
>get procrustis coordinates from morphoJ, but
>just confused how to get the procrustis distance
>matrix. If I need to use any other program, I could also do that.
>Thanks everyone for any help.
>Sincerely,
>Shobnom Ferdous
>[email protected]
>
>----- End forwarded message -----
Dr. Andrea Cardini
Researcher in Animal Biology
Dipartimento di Scienze Chimiche e Geologiche,
Università di Modena e Reggio Emilia, l.go S. Eufemia 19, 41121 Modena, Italy
Honorary Fellow
Centre for Anatomical and Human Sciences
University of Hull, Cottingham Road, Hull, HU6 7RX, UK
University of York, Heslington, York YO10 5DD, UK
Adjunct Associate Professor
Centre for Forensic Science , The University of Western Australia
35 Stirling Highway, Crawley WA 6009, Australia
E-mail address: [email protected], [email protected]
Webpage: http://sites.google.com/site/hymsfme/drandreacardini
Datasets:
http://ads.ahds.ac.uk/catalogue/archive/cerco_lt_2007/overview.cfm#metadata
Editorial board for:
Zoomorphology:
http://www.springer.com/life+sciences/animal+sciences/journal/435
Journal of Zoological Systematics and
Evolutionary Research: http://www.wiley.com/bw/journal.asp?ref=0947-5745&site=1
Hystrix, the Italian Journal of
Mammalogy: http://www.italian-journal-of-mammalogy.it/
----- End forwarded message -----
