similar to: R-About PLSR

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

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 =

Hello Sir/Mam I am Nitish Kumar Mishra from IMTECH, Chandigarh, India. I want to calculate the Principal Component Analysis(PCA), PLS of the input file and find top 30 PCAs of this file using PLS in R. I am asking regarding Linux(Red Hat 9) operating system. I have downloaded PLS from Crains site and try to installed it, but don't installed it. How I can download and installed PLS(for PCA and

Hi, Help me, how I can Install made4(micoarray analysis tool) in R using linux OS. thanking you. -- Nitish Kumar Mishra Junior Research Fellow BIC, IMTECH, Chandigarh, India E-Mail Address: nitish_km at yahoo.com nitish at imtech.res.in

Hi R hep group member, I want to know that how I can call my data in R for princomp function. I want to calculate PCA of 200 descriptors of 4000 molecule(I am using Linux). How I can call this in R. Thanking you. -- Nitish Kumar Mishra Junior Research Fellow BIC, IMTECH, Chandigarh, India E-Mail Address: nitish_km at yahoo.com nitish at imtech.res.in

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 =

All, I am working with NIR spectral data and it was great to find that the example in ?plsr also used spectral data. Unfortunately, I am having difficulty figuring out how the "yarn" dataset is structured to allow for the plsr model to read: library(pls) data(yard) yarn.oscorespls <- mvr(density ~ NIR, 6, data = yarn, validation = "CV", method = "oscorespls")

Dear developeRs, I maintain a package 'pls', which has a main fit function mvr(), and functions plsr() and pcr() which are meant to take the same arguments as mvr() and do exactly the same, but have different default values for the 'method' argument. The three functions are all exported from the name space. In the 'pre namespace' era, I took inspiration from lm() and

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 -- View this message in context:

I'm new in both R and statistics. I "did my homework", I tried the archives and whatever I managed to get from the sources, but still I need assistance with the plsr package. I have a model with 2 core determinants D1 and D2, made by 3 indicators each (D1a,D1b,D1c and so on). Also I have 2 moderating variables (m1,m2), where m1 moderates D1 and m2 modarates D2. The dependent

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

Hello, I have a data set with 15 variables (first one is the response) and 1200 observations. Now I use pls package to do the plsr as below. trainSet = as.data.frame(scale(trainSet, center = T, scale = T)) trainSet.plsr = mvr(formula, ncomp = 14, data = trainSet, method = "kernelpls", model = TRUE, x = TRUE, y = TRUE) from the model, I wish to know the

Hi, With some help I learned how to use plsr(Y~x, 2, data=my) function in R (and build "my" from vector "Y" and matrix "x"). But still I have question about results interpretation. In the end I want to construct prediction function in form: Y=a1x1+a2x2 But I do not understand how to do it. Documentation do not describe this. Thanks for help. ;) [[alternative HTML

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 -- View this message in context: http://r.789695.n4.nabble.com/R-square-and-F-stats-in-PLS-tp3924484p3924484.html Sent from the R help mailing list archive at Nabble.com.

Hi I am attempting to use plsr which is part of the pls package in r. I amconducting analysis on datasets to identify which proteins/peptides are responsible for the variance between sample groups (Biomarker Spoting) in a multivariate fashion. I have a dataset in R called "FullDataListTrans". as you can see below the structure of the data is 40 different rows representing a

Hi I am analysing a dataset of 40 samples each with 90,000 intensity measures for various peptides. I am trying to identify the Biomarkers (i.e. most significant peptides). I beleive that PLS with jack knifing, or alternativeley CMV(cross-model-validation) are multivariateThe 40 samples belong to four different groups. I have managed to conduct the plsr using the commands: BHPLS1 <-

Hi, I need your help, so I send letter to you. I have a problem about plsr in pls package. I want to show how classfied or related each ohter samples, so I tried to use plsr and biplot. But, I failed. Because, I had to change data type of my sample. Unfortunately, I didn't know how change data type. I want you to help me about that. please, help me. I show you my sample data , my scripts

Hi, this is my R-Script library(pls) file <- "C:\\TXT\\brix.txt" d <- as.matrix(read.table(file, header=T, sep=",", row.names = NULL)) plsdata <- data.frame(NIR=c(1:nrow(X))) plsdata$NIR <- I(d[,3:603]) plsdata$Brix <- d[,2] results <- plsr(Brix ~ NIR, data=plsdata) after the last string i have this error > results <- plsr(Brix ~ NIR, data=plsdata)

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 -- View this message in context: http://r.789695.n4.nabble.com/getting-p-value-and-standard-error-in-PLS-tp3914760p3914760.html Sent from the R help mailing list archive at Nabble.com.

I am having a similar problem understanding the data structure of the "yarn" dataset described in the "[R] data structure for plsr" posts. I have spectroscopic data I'd like to run through a PLSR and have read the tutorial series, but still do not understand the data format required for the code to process my data. My current data structure consists of a .csv file read into