similar to: nMDS with R: missing values

I'm not sure how you are incorporating time period into your data structure. Typically we are looking at plots or assemblages as the rows and taxa as the columns. Time period adds a third dimension that could be added as blocks of rows. For example, depending on the resolution of your data, one approach would be to have up to 8 rows for each locality: Loc1.1000, Loc1.2000, . . . Loc1.8000. If

Dear All, I was wondering whether anyone might be able to provide some advice with an nMDS / R problem. I?m trying to run nMDS on a dataset that contains many missing values and was wondering how I can account for the missing values when running nMDS? It seems as though the data are being grouped depending on where the zero values appear. Any suggestions greatly appreciated. Thank you very much

On Tue, 2018-12-04 at 08:19 +0000, J Martin Rushton via CentOS wrote: > The '/etc/named.conf.rpmnew' file supplied is a bare minimum to > "configure the ... server as a caching only nameserver (as a localhost > DNS resolver only)". As soon as you start adding any structure to it > things change, not just are added to. See >

Hello, In trying to resolve a problem with a cron job, we can see when the job starts by looking in the /var/log/cron log file. However, I was asked if when the job ends could also be logged. (It seems to be something that crops up every so often over the years.) I found on the 'net this article https://serverfault.com/questions/248915/crontab-is-there-any-log-with-begin-and-end-time which

On Sun, 2020-06-07 at 23:36 +0200, Leon Fauster via CentOS wrote: > I have some scripts using certwatch from the crypto-utils package. This > rpm seems to be unshipped with EL8. Any ideas whats the "new" tool to > check pem cert files? > Hi, I have used the 'x509watch' package for several years now to see when certificates are about to expire. John. -- John Horne

On Fri, 2019-11-15 at 16:32 -0500, Karl Vogel wrote: > > > On Fri, Nov 15, 2019 at 05:54:07PM +0000, John Horne wrote: > > J> In trying to resolve a problem with a cron job, we can see when the job > J> starts by looking in the /var/log/cron log file. However, I was asked if > J> when the job ends could also be logged. (It seems to be something that > J> crops

Hello, I was looking at a process through the '/proc' file system, and came across a process name which seemed to contain a hex value: lrwxrwxrwx. 1 xymon xymon 0 Aug 2 14:07 /proc/58032/exe -> /usr/sbin/xymond;5d44410e (deleted) I am aware of what the 'deleted' part means, but have no idea what the ';5d44410e' part means. Is this some sort of thread reference? The

The '/etc/named.conf.rpmnew' file supplied is a bare minimum to "configure the ... server as a caching only nameserver (as a localhost DNS resolver only)". As soon as you start adding any structure to it things change, not just are added to. See '/usr/share/doc/bind-*/sample/etc/named.conf' for example. Probably the biggest "gotcha" is that as soon as you use

Hello, For many years we have modified the '/etc/named.conf' file to include local settings. The disadvantage with this is of course that when bind is updated, it creates an '/etc/named.conf.rpmnew' file. We then have to determine what is new, and apply the relevant changes to our modified named.conf file. There is, however, an '/etc/named' directory which I assumed was

On Mon, 2019-08-05 at 13:06 +0100, Giles Coochey wrote: > On 05/08/2019 12:56, John Horne wrote: > > Hello, > > > > I was looking at a process through the '/proc' file system, and came across > > a process name which seemed to contain a hex value: > > > > lrwxrwxrwx. 1 xymon xymon 0 Aug 2 14:07 /proc/58032/exe -> > >

Hi, I'm using nmds command (library vegan) to analyze some fishing data. I'd like to plot not only points, but also the names of species and stations in a specified position. I used the command text(nmds$points[,1], nmds $points[,2],labels=row.names(nmds $points),pos=3,cex=0.5) But the labels are sometimes overlapped. Is there any way to use identify, or a similar command, to plot the

Hi Im currently trying to plot my NMDS data together with fitted variables (envfit funct) on an ordination plot. The plot function shows two displays="sites" and "sp". I was wondering how to plot it so that the sites come up as different points for different sites but the species come up as actual names? It looks a little busy at the moment with everything in. Sya -- View

I am trying to plot an nMDS plot using ggplot2. My rownames are coded so that they can be broken down by Site, Species, Treatment, or Replicate based on unique separators. There are no column headers. I am having trouble coding ggplot2 to plot by Site -or- Species -or- Treatment and NOT by all unique row names. This is probably a simple question but I'm still very new with command line

Hi! Thanks for providing great help in R-related statistics. Now, however I'm stuck. I'm not a statistics person but I was recommended to use R to perform a nmds plot and PerMANOVA of my dataset. Sample(treatment) in the columns and species (OTU) in the rows. I have 4 treatments (Ambient Temperature, Ambient temperature+Low pH, High temperature, High temperature+low pH), and I have 16

Hi, I am currently working on some data and feel that NMDS would return an excellent result. With my current data set however I have been experiencing some problems and cannot carry out metaMDS. I have tried with a few smaller data sets which I created for practice sake and this has worked fine. I think it is the set up of my data set that is causing me trouble. I have 18 columns and 18 rows,

I have some scripts using certwatch from the crypto-utils package. This rpm seems to be unshipped with EL8. Any ideas whats the "new" tool to check pem cert files? -- Leon

I set this computer up with Centos 8 a few days ago. "systemctl status mlocate-updatedb.timer" says "Active (waiting)". But the mlocate database hasn't been updated since the last time I ran updatedb manually. # ls -l /var/lib/mlocate/* -rw-r-----. 1 root slocate 22944208 Feb 29 10:30 /var/lib/mlocate/mlocate.db What have I missed? -- MELVILLE THEATRE ~ Real D 3D

hello, subsequently to a NMDS analysis (performed with metaMDS or isoMDS) is it possible to rotate the axis through a varimax-rotation? Thanks in advance. Bernd Panassiti

Hi, I have used Vegan to construct an NMDS ordination plot. I plotted sites of three forest types with the site number in it. My reviewer has asked me to use different symbols for each of the forest types. Can anyone send me how I can do this in R in simple steps. I have used the options like ordiplot, sel and pl syntaxes that are not working for the question that I asked for. Best, Sinu --

Hello, I can draw a basic stress plot for NMDS with the following code in package Vegan. > stressplot(parth.mds, parth.dis) When I try to specify the line and point types, it gives me error message. > stressplot(parth.mds, parth.dis, pch=1, p.col="gray", lwd=2, l.col="red") Error in plot.xy(xy, type, ...) : invalid plot type In the above code, if I removed line type,