Displaying 20 results from an estimated 600 matches similar to: "Mathematical annotation in lattice strip: Is it possible?"
2008 May 12
1
inserting mathematical symbols in lattice strip
I have tried without success to find a way including the square root symbol
in lattice strips as part of my conditioning labels. I have tried
supplementing by creating a list of vectors using the var.name function
coupled with the expression function used in xlab/ylab.
xyplot(adjusted_Rand_index~cluster|distance_measure, main="Level of
agreement between partitions: Wards Method",
2008 Aug 13
1
re placing default labels in lattice
Dear all,
I am having a little trouble deciphering how to change the default x-axis
labels in a lattice xyplot (or any type of lattice plot for that matter). I
have tried using the "demo("labels") function but the code is truncated at
precisely the wrong moment!
All I am trying to do is to add superscript to two of the labels for which i
tried using the expression function. It
2013 Jun 22
1
metaMDS Error, Nan similar or negative values
H
ello R-experts,
I want to do ordination plots using vegan metaMDS.
I have a where many cells have zero values.
Data structure:
X[1:10,1:14]
Height.1 Height.2 Height.3 Height.4 Height.5 Height.6 Height.7
Height.8 Height.9 Height.10 Height.11 Height.12 Height.13
D30I1A 46 0 0 0 0 0 0
0 0 0 39 0 98
D30I1B
2004 Dec 10
1
How to circumvent negative eigenvalues in the capscale function
Dear All
I am trying to do a partial canonical analysis of principal coordinates
using Bray-Curtis distances. The capscale addin to R appears to be the only
way of doing it, however, when I try and calculate a Bray-Curtis distance
matrix either using Capscale or Vegedist (capscale I understand uses
Vegedist anyway to calculate its distance matrix), R uses up all available
memory on the computer,
2010 Apr 18
8
[Bug 27720] New: Hard Hang on suspend - 8600M GS
https://bugs.freedesktop.org/show_bug.cgi?id=27720
Summary: Hard Hang on suspend - 8600M GS
Product: xorg
Version: git
Platform: x86-64 (AMD64)
OS/Version: Linux (All)
Status: NEW
Severity: normal
Priority: medium
Component: Driver/nouveau
AssignedTo: nouveau at lists.freedesktop.org
2009 Jul 07
1
Mathematical annotation axis in lattice
Dear list,
making mathematical expressions in plots is not difficult: expression(phi[1]) for example. At this moment I am stuck in creating a vector of expressions:
pos <- 1:10
lab <- letters[pos]
Now, I would like to create a vector of expressions which I could use for labeling the x-axis of a lattice plot.
ll <- as.expression(paste(pos," phi[",lab,"]",sep =
1999 May 24
1
Mathematical Annotation: subscripts
How does one produce subscripts in axis labels?
--------------------------------------------------------------------
Kurt Lohman, Biostatistician
Department of Public Health Sciences tel: (336) 716-7167
Wake Forest University School of Medicine fax: (336) 716-6427
Winston-Salem, NC 27157 klohman at rc.phs.wfubmc.edu
2004 Mar 16
2
bray-curtis?
Does R have a function to calculate Bray-Curtis distance measures, which is
probably one of the most frequently used and recommended dissimilarity
measures in ecology? It isn't mentioned in dist().
2010 Feb 26
2
Error in mvpart example
Dear all,
I'm getting an error in one of the stock examples in the 'mvpart' package. I tried:
require(mvpart)
data(spider)
fit3 <- rpart(gdist(spider[,1:12],meth="bray",full=TRUE,sq=TRUE)~water+twigs+reft+herbs+moss+sand,spider,method="dist") #directly from ?rpart
summary(fit3)
...which returned the following:
Error in apply(formatg(yval, digits - 3), 1,
1997 Sep 11
1
R-alpha: Mathematical Annotation in R (plots)
[[ this has first bounced to me as 'list-manager', because the
subject said ``Returned mail: User unknown''
Paul, I assume you'd approve the subject I've chosen...
-- Martin M
]]
hi
for those who are interested ...
the following is a LaTeX document which describes the current state of
mathematical expression syntax in R
paul
------CUT
2011 Oct 03
4
distance coefficient for amatrix with ngative valus
Hi,
I need to run a PCoA (PCO) for a data set wich has both positive and negative values for variables. I could not find any distancecoefficient other than euclidean distace running for the data set. Are there any other coefficient works with negtive values.Also I cannot get summary out put (the eigen values) for PCO as for PCA.
Thanks.
Dilshan
[[alternative HTML version deleted]]
2007 Aug 22
1
distance by vegan
How to calculate sorensen (bray-curtis) distance by dist function
within the vegan package?
Cheers
Duccio
2011 Sep 09
2
NMDS plot and Adonis (PerMANOVA) of community composition with presence absence and relative intensity
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
2004 May 13
2
BIO-ENV procedure
I've been unable to find a R package that provides the means of
performing Clarke & Ainsworth's BIO-ENV procedure or something
comparable. Briefly, they describe a method for comparing two separate
sample ordinations, one from species data and the second from
environmental data. The analysis includes selection of the 'best'
subset of environmental variables for explaining
2009 Sep 01
3
Strange error returned or bug in gam in mgcv????
Dear friends,
what is this error message in gam???? I cannot understand what it means ....
is it a bug?
gam_bray_scot24_pc_0505<gam(bray~s(PC1,PC2,PC3,PC4,PC5,
PC1.1,PC2.1,PC3.1,PC4.1,PC5.1),data=dist_scot24_vector_with_climate)
Error in if (length(data) != vl) { :
missing value where TRUE/FALSE needed
Calls: gam ... smooth.construct -> smooth.construct.tp.smooth.spec -> array
In
2006 Nov 10
2
Problems with metaMDS from vegan
Hello all,
I recently used the Vegan library quite extensively (in the context of
text similarity assessment) on an Ubuntu 6.06 LTS system with R version
2.2.1 (2005-12-20 r36812). The Vegan lib is version 1.6-10.
I hit on a problem yesterday, though, when trying to install R and Vegan
on two further computers - one Windows XP and one further Ubuntu 6.06
machine, taking either R version 2.4.0
2010 Feb 09
1
Bug#569014: logcheck kernel rules don't match [<blank><number>.<number>]
Package: logcheck
Version: 1.2.69
The current ruleset "kernel" provided with this logcheck package don't
match entries where the kernel timeline has leading spaces, like:
[ 42.302707]
For example, the following entry:
Feb 4 17:05:24 hostname kernel: [ 144.591487] tun: Universal TUN/TAP
device driver, 1.6
didn't matched the re:
^\w{3} [ :0-9]{11} [._[:alnum:]-]+
2013 Dec 17
1
What is the formula of Pseudo-F statistic in capscale in vegan?
Dear R-help,
We are conducting a distance-based redundancy analysis using capscale and
then testing for statistical significance for six terms in the model for the
constrained ordination using anova.cca in the vegan package. The
significance test is sequential, i.e., testing for significance of a term
only after accounting for all preceding terms. Could someone please provide
us with either the
2006 Nov 16
2
question about capscale (vegan)
Hello,
I am interested in using the capscale function of vegan package of R. I
already have a dissimilarity matrix and I am intended to use it as
'distance' argument. But then, I don't know what kind of data must be in
'comm' argument. I don't understand what type of data must be referred
as 'species scores' and 'community data frame' since my data refer to
2010 Dec 01
1
procrustes results affected by order of sites in input file
Dear All,
I am using a Procrustes analysis to compare two NMDS ordinations for the
same set of sites. One ordination is based on fish data, the other is based
on invertebrate data. Ordinations were derived using metaMDS() from the
{vegan} library as follows:
fish.mds<-metaMDS(fish.data, distance="bray", k=3, trymax=100,
wascores=TRUE, trace=TRUE, zero="add")