Displaying 20 results from an estimated 1000 matches similar to: "package(pls) - extracting explained Y-variance"
2007 May 25
2
R-About PLSR
hi R help group,
I have installed PLS package in R and use it for princomp & prcomp
commands for calculating PCA using its example file(USArrests example).
But How I can use PLS for Partial least square, R square, mvrCv one more
think how i can import external file in R. When I use plsr, R2, RMSEP it
show error could not find function plsr, RMSEP etc.
How I can calculate PLS, R2, RMSEP, PCR,
2011 Oct 18
1
getting p-value and standard error in PLS
Hi
How to get p-value and the standard error in PLS
I have used the following function to calculate PLS
fit1 <- mvr(formula=Y~X1+X2+X3+X4, data=Dataset, comp=4)
Please help me
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2017 Dec 05
2
PLS in R
Hello, I need help with a partial least square regression in R. I have read
both the vignette and the post on R bloggers but it is hard to figure out
how to do it. Here is the script I wrote:
library(pls)
plsrcue<- plsr(cue~fb+cn+n+ph+fung+bact+resp, data = cue, ncomp=7,
na.action = NULL, method = "kernelpls", scale=FALSE, validation = "LOO",
model = TRUE, x = FALSE, y =
2006 Jul 06
1
PLS method
dear all,
I am a new comer to R and statistic. Now I have a little confuse about the
package pls.
I have to use 5 components to form a model. There are strong relationship
between some of the components, which leads to the changes of the sign of
each coeficeince, of course this is unwanted when using the normal
regression way. So I choose the way of PLS, which is good at solve this kind
of
2005 Jun 06
1
Help package pls.pcr
Hello!
I need help to use the package pls.pcr in R.
I installed R in an IRIX 6.5, using the version of R 0.64.1 from
sgifreeware(I didn't get to install the newest version using make). I
need to use the package pls.pcr and when I give the command:
# R
R : Copyright 1999, The R Development Core Team
Version 0.64.1 (May 8, 1999)
R is free software and comes with ABSOLUTELY NO
2011 Oct 18
1
problem in exceuting PLS
Hi
I'm performing a PLS
This is my data present in a file
Year Y X2 X3 X4 X5 X6
1960 27.8 397.5 42.2 50.7 78.3 65.8
1960 29.9 413.3 38.1 52 79.2 66.9
1961 29.8 439.2 40.3 54 79.2 67.8
1961 30.8 459.7 39.5 55.3 79.2 69.6
1962 31.2 492.9 37.3 54.7 77.4 68.7
My R-code
Data <- read.csv("C:/TestData.csv")
variable=names(Data)[4:8]
dataset=NULL
dataset$X=NULL
len=length(variable)
2003 Jul 24
1
pls regression - optimal number of LVs
Dear R-helpers,
I have performed a PLS regression with the mvr function from the pls.pcr package an I have 2 questions :
1- do you know if mvr automatically centers the data ? It seems to me that it does so...
2- why in the situation below does the output say that the optimal number of latent variables is 4 ? In my humble opinion, it is 2 because the RMS increases and the R2 decreases when 3 LVs
2011 May 17
1
help with PLSR Loadings
Hi
When I call for the loadings of my plsr using the command,
x <- loadings(BHPLS1)
my loadings contain variable names rather than numbers.
>str(x)
loadings [1:94727, 1:10] -0.00113 -0.03001 -0.00059 -0.00734 -0.02969 ...
- attr(*, "dimnames")=List of 2
..$ : chr [1:94727] "PCIList1" "PCIList2" "PCIList3" "PCIList4" ...
..$ : chr
2011 Jun 08
1
Help with plotting plsr loadings
Hi
I am attempting to do a loadings plot from a plsr object. I have managed to do
this using the gasoline data that comes with the pls package. However when I
conduct this on my dataset i get the following error message.
>plot(BHPLS1, "loadings", comps = 1:2, legendpos = "topleft", labels = "numbers",
>xlab = "nm")
Error in
2011 Oct 21
1
use of segments in PLS
How to use the segments in the PLS
fit1 <- mvr(formula=Y~X1+X2+X3+X4+x5+....+x27, data=Dataset, comp=5,segment
=7 )
here when i use segments,the error was like this
rror in mvrCv(X, Y, ncomp, method = method, scale = sdscale, ...) :
argument 7 matches multiple formal arguments
Please help
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2007 Oct 23
1
Compute R2 and Q2 in PLS with pls.pcr package
Dear list
I am using the mvr function of the package pls.pcr to compute PLS
resgression using a X matrix of gene expression variables and a Y matrix
of medical varaibles.
I would like to obtain the R2 (sum of squares captured by the model) and
Q2 (proportion of total sum of squares captured in leave-one-out cross
validation) of the model.
I am not sure if there are specific slots in the
2007 Nov 26
1
mvr error in PLS package
All,
I have been using a data set to build pls models for three different soil properties. Two of the three models run fine; however I receive the following error for the final model.
> libs.IC.cal <- mvr(libs.IC.fmla, data = libsdata.cond.cal, ncomp=20,validation = "LOO", method = "oscorespls")
Error in colMeans(x, n, prod(dn), na.rm) :
'x' must
2017 Dec 01
1
pls in r
Hello,
I am a beginner in R, and I wonder if anyone could help me with a partial least square regression in R. I have looked up the instructions and the manual from Bjorn Mevi and Ron Wehrens. However, I think I managed to write the script correctly, but I dont understand the output on the R environment, and also how to decide on the number of components to use (from the RMSEP), and also how to
2012 Mar 06
1
PLS Error message
Hi,
I work with hyperspectral remote sensing data and I try to built a pls
model with this data. I already built the model but if I try to
calculate the RMSEP and R2 with a test data set I get the following
error message:
Error: variable 'subX' was fitted with type "nmatrix.501" but type
"nmatrix.73" was supplied
The problem is that I don't get the message for
2011 Oct 24
2
How to get intecerpt standard error in PLS
Hi
how do we get intercepts standard error. I'm using the package pls.
i got the coefficient but not able to get the stabdard error
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2005 May 12
1
pls -- crossval vs plsr(..., CV=TRUE)
Hi,
Newbie question about the pls package.
Setup:
Mac OS 10.3.9
R: Aqua GUI 1.01, v 2.0.1
I want to get R^2 and Q^2 (LOO and Leave-10-Out) values for each
component for my model.
I was running into a few problems so I played with the example a little
and the results do not match up with the comments
in the help pages.
$ library(pls)
$ data(NIR)
$ testing.plsNOCV <- plsr(y ~ X, 6, data =
2007 Jul 06
1
about R, RMSEP, R2, PCR
Hi,
I want to calculate PLS package in R. Now I want to calculate R, MSEP,
RMSEP and R2 of PLSR and PCR using this.
I also add this in library of R. How I can calculate R, MSEP, RMSEP and R2
of PLSR and PCR in R.
I s any other method then please also suggest me. Simply I want to
calculate these value.
Thanking you.
--
Nitish Kumar Mishra
Junior Research Fellow
BIC, IMTECH, Chandigarh, India
2007 May 21
1
PLS in R and SAS
Dear all:
I am comparing the PLS outputs of R and SAS for the following data set:
Y x1 x2 x3
3 6 2 2
3 1 5 5
4 7 4 1
5 6 5 6
2 4 3 2
8 5 0 9
where Y is the dependent variable and x1, x2, x3 are the independent variables. I found several PLS algorithms in R (NIPALS,SIMPLS,KERNEL PLS). SAS has SIMPLS and NIPALS.
The following are the NIPALS calculations of
2011 Oct 21
1
R square and F - stats in PLS
In the lm function the summary(lmobject) we have adjusted.r square and f
statistics
Do we have similar to the pls package and how to get it
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2009 Oct 01
0
Confidence intervals PLS prediction
I have switched from The Unscrambler to R for pls regression analysis and
have been able to calculate scores, coefficients, RMSEP from a large number
of PLS1 and PLS2 models. The ultimate goal is to use these models for
predicting unknown samples, which again is straight-forward with the
built-in predict() function. However, I?m struggling with prediction
uncertainty (i.e. confidence intervals) on