Re: [R] envfit vector labels with ordiplot3d

2011-09-14 Thread Briony
Hi Gavin, It might help to push the label away from the arrow head a little bit: ordilabel(pl$arrows * 1.075) This seems to do a pretty good job. will push the label 7.5% away from the arrow head. It seems that that is the best we can currently do with vegan. When you say that this is not

Re: [R] envfit vector labels with ordiplot3d

2011-09-13 Thread Briony
It *really* does help to read the documentation for functions. Like most of the functions in vegan that extract information from ordinations, ordilabel() extracts information for axes 1 and 2 only, by default. Does ordilabel(pl$arrows, choices = 1:3) work for you? G Thanks for the suggestion.

Re: [R] envfit vector labels with ordiplot3d

2011-09-13 Thread Briony
It *really* does help to read the documentation for functions. Like most of the functions in vegan that extract information from ordinations, ordilabel() extracts information for axes 1 and 2 only, by default. Does ordilabel(pl$arrows, choices = 1:3) work for you? G Thanks for the suggestion.

Re: [R] envfit vector labels with ordiplot3d

2011-09-13 Thread Gavin Simpson
On Tue, 2011-09-13 at 05:18 -0700, Briony wrote: It *really* does help to read the documentation for functions. Like most of the functions in vegan that extract information from ordinations, ordilabel() extracts information for axes 1 and 2 only, by default. It also helps if I read the docs

Re: [R] envfit vector labels with ordiplot3d

2011-09-12 Thread Briony
Thank you very much for the suggestion. And while I'm here, thank you for vegan and the documentation that goes with it. I tried ordilabel(pl$arrows) but the labels only seem to be in two dimensions. I'm not a skilled enough user of R to edit the ordixyplot function - so I'll pass on that

Re: [R] envfit vector labels with ordiplot3d

2011-09-12 Thread Uwe Ligges
Please quote the prior thread, otherwise readers of this mailing list will not get the context. Uwe Ligges On 12.09.2011 01:41, Briony wrote: Thank you very much for the suggestion. And while I'm here, thank you for vegan and the documentation that goes with it. I tried

Re: [R] envfit vector labels with ordiplot3d

2011-09-12 Thread Briony
Thank you very much for the suggestion. And while I'm here, thank you for vegan and the documentation that goes with it. Function ordiplot3d uses scatterplot3d, and it returns also all scatterplot3d items, like functions xyz.converter and points3d that can be used for tuning labels. I tried

Re: [R] envfit vector labels with ordiplot3d

2011-09-12 Thread Gavin Simpson
On Mon, 2011-09-12 at 03:24 -0700, Briony wrote: Thank you very much for the suggestion. And while I'm here, thank you for vegan and the documentation that goes with it. Function ordiplot3d uses scatterplot3d, and it returns also all scatterplot3d items, like functions xyz.converter and

Re: [R] envfit vector labels with ordiplot3d

2011-09-09 Thread Jari Oksanen
Briony brionynorton at gmail.com writes: Hi R experts, I'm looking for some help with plotting vectors from envfit in vegan, onto a 3d plot using ordiplot3d. So far I have data.mds - metaMDS(data, k=3,trace = FALSE) vect_data-envfit(data.mds,vegdata[,3:21],choices=1:3,permu=)

[R] envfit vector labels with ordiplot3d

2011-09-08 Thread Briony
Hi R experts, I'm looking for some help with plotting vectors from envfit in vegan, onto a 3d plot using ordiplot3d. So far I have data.mds - metaMDS(data, k=3,trace = FALSE) vect_data-envfit(data.mds,vegdata[,3:21],choices=1:3,permu=) ordiplot3d(data.mds,envfit=vect_data)