[adegenet-forum] FW: MSPA

[Jombart, Thibaut]

Hi there,

yes, this 'package' is merely a set of functions I had contributed during a workshop - I am not maintaining it currently.

I think Stephane Dray (Cced), author of ade4, is also working on an adespatial which would integrate the MSPA.

Stephane, is this functional yet?

Best
Thibaut


________________________________
From: Genevieve Diedericks [diedericks.genevieve at gmail.com]
Sent: 03 August 2015 13:46
To: Jombart, Thibaut
Cc: adegenet-forum at lists.r-forge.r-project.org
Subject: Re: FW: MSPA

Hi Jombart,

I'm struggling to install sedarJombart and cannot seem to find the zip file either (I've installed an older R version in the hopes of getting it installed). Any advice?
Thank you.

Regards
Genevieve


On Thu, Jul 30, 2015 at 1:25 PM, Diedericks, G, Me <gend at sun.ac.za<mailto:gend at sun.ac.za>> <gend at sun.ac.za<mailto:gend at sun.ac.za>> wrote:

________________________________
From: Jombart, Thibaut
Sent: 30 July 2015 01:24:53 PM (UTC+02:00) Harare, Pretoria
To: Diedericks, G, Me <gend at sun.ac.za<mailto:gend at sun.ac.za>>; adegenet-forum at lists.r-forge.r-project.org<mailto:adegenet-forum at lists.r-forge.r-project.org>
Subject: RE: MSPA


The graph may be too large for your computer to handle? Rendering of large graphs is typically slow on R's graphic devices. How many nodes do you have?

Best
Thibaut

ps: please keep the forum Cced


________________________________
From: Diedericks, G, Me <gend at sun.ac.za<mailto:gend at sun.ac.za>> [gend at sun.ac.za<mailto:gend at sun.ac.za>]
Sent: 30 July 2015 12:07
To: Jombart, Thibaut
Subject: Re: MSPA


Hi,


Thanks for the speedy reply! I did as you suggested, but my R session keeps on bombing out or hanging (I am using Rstudio).

Any suggestions on how to fix this?


Thank you.


Kind regards,

Genevieve


________________________________
From: Jombart, Thibaut <t.jombart at imperial.ac.uk<mailto:t.jombart at imperial.ac.uk>>
Sent: 30 July 2015 12:37 PM

To: Diedericks, G, Me <gend at sun.ac.za<mailto:gend at sun.ac.za>>; adegenet-forum at lists.R-forge.R-project.org<mailto:adegenet-forum at lists.R-forge.R-project.org>
Subject: RE: MSPA

Hi there,

if I remember well, chooseCN has an option to edit the graph manually / interactively. The interface is a bit clunky but it should do the trick.

Just set the argument edit.nb=TRUE when creating your graph.

Cheers
Thibaut


________________________________
From: adegenet-forum-bounces at lists.r-forge.r-project.org<mailto:adegenet-forum-bounces at lists.r-forge.r-project.org> [adegenet-forum-bounces at lists.r-forge.r-project.org<mailto:adegenet-forum-bounces at lists.r-forge.r-project.org>] on behalf of Diedericks, G, Me <gend at sun.ac.za<mailto:gend at sun.ac.za>> [gend at sun.ac.za<mailto:gend at sun.ac.za>]
Sent: 30 July 2015 10:24
To: adegenet-forum at lists.R-forge.R-project.org<mailto:adegenet-forum at lists.R-forge.R-project.org>
Cc: Diedericks, G, Me <gend at sun.ac.za<mailto:gend at sun.ac.za>>
Subject: [adegenet-forum] MSPA


Good day,


I'm trying to run a MSPA for a freshwater fish species, sampled at 10 sites along a river. I have chosen the Delaunay Triangulation, but need to edit the connections as some of the sites are below a dam wall, so the fish cannot move back up the river. Could you please assist me with this?


Kind regards,

Genevieve


________________________________
Genevieve Diedericks
PhD candidate ~ Zoology
Centre for Invasion Biology (C.I.B)
Department of Botany & Zoology
Stellenbosch University
South Africa
+27 (0) 21 808 4135<tel:%2B27%20%280%29%2021%20808%204135>

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