Don't the functions metaMDSdist() and metaMDSredist() that are documented on the metaMDS manual page give you the distance matrix? If you want to compute the distances based on a single axis, you could use vegdist().
David C -----Original Message----- From: r-help-boun...@r-project.org [mailto:r-help-boun...@r-project.org] On Behalf Of Cara Fiore Sent: Thursday, August 28, 2014 7:02 PM To: r-help@r-project.org Subject: [R] distance matrix from metaMDS Dear R users, I would like to access the distance matrix generated by metaMDS as well as use the dist function to calculate the euclidean distance for each axis in the NMDS. I am having trouble finding a way to access these variables and any help is greatly appreciated. For the distance matrix I know I could just calculate the bray-curtis distance but it would be nice to know how to get it from the NMDS function. For the euclidean distance, the only thing I can find within metaMDS is the score function but there must be some way for me to call on/access the ordination distance for one axis right? The reason for this is I would like to do something like the stressplot function but for each axis. Thank you, Cara [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code. ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
