similar to: Help in using 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

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

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

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")

How do you install a package from CRAN ? I want to install pls.pcr, so I have downloaded pls.pcr_0.1.1.tar.gz but when I try to install it using the install package(s) from local zip file(s) option it says : > install.packages(choose.files('',filters=Filters[c('zip','All'),]), .libPaths()[1], CRAN = NULL) Error in file(file, "r") : unable to open connection

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

Dear all, I found pls.pcr package will give different results if the data are centered and scaled using scale(). I am not sure about when I should scale my data, and whether the dependent variable should be scaled. If the dependent variable is scaled, how I give a prediction to the real data? I appreciate for any suggestions and comments. Best regards, Jinsong ===== (Mr.) Jinsong Zhao Ph.D.

Dear list, I have a question concerning the above mentioned methods in the pls package with respect to the loadings matrix produced by the call. In some work I am doing I have found that the values produced are nearly of the same magnitude but of opposite sign. When I use the example data (sensory) I find this result reproduced. I am prepared to work this through but I have a feeling that

Hello all, I have generated a principal components regression model using the pcr() function from the PLS package (R version 2.12.0). I am getting a "non-conformable arguments" error when I try to use the predict() function on new data, but only when I try to read in the new data from a separate file. More specifically, when my data looks like this #########training data

Hi list, I am looking at the data yarn in package, I don't understand what is dimension of this data set. I did the following: > library(pls) > data(yarn) > dim(yarn) [1] 28 3 > head(yarn) NIR.1 NIR.2 NIR.3 NIR.4 NIR.5 NIR.6 NIR.7 NIR.8 NIR.9 NIR.10 NIR.11 1 3.06630 3.08610 3.10790 3.09720 2.99790 2.82730 2.62330 2.40390 2.19310 2.00580 1.83790 2

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

Hi~ helpers. I was surprised by R data type. I use to data type like table. I don't know R allow several data type such as list, number, matrix in the same matrix. I want to use plsr in pls package to anlaysis data. So, I read R help and example of plsr. that example show me that data as yarn has three colname as NIR, density and train. the NIR was 268(No. of col) X 71(No. of row)

Version 2.0-0 of the pls package is now available on CRAN. The pls package implements partial least squares regression (PLSR) and principal component regression (PCR). Features of the package include - Several plsr algorithms: orthogonal scores, kernel pls and simpls - Flexible cross-validation - A formula interface, with traditional methods like predict, coef, plot and summary - Functions

Version 2.0-0 of the pls package is now available on CRAN. The pls package implements partial least squares regression (PLSR) and principal component regression (PCR). Features of the package include - Several plsr algorithms: orthogonal scores, kernel pls and simpls - Flexible cross-validation - A formula interface, with traditional methods like predict, coef, plot and summary - Functions

Hi, I have the following question about creating data frames. I want to create a data frame with 2 components: a vector and a matrix. Let me use a simple example: y <- rnorm(10) x <- matrix(rnorm(150), nrow=10) Now if I do dd <- data.frame(x=x, y=y) I get a data frame with 16 colums, but if, according to the documentation, I do dd <- data.frame(x=I(x), y=y) then str(dd)

I intend to port an R project from Linux to Windows. It involves C code that is loaded via dyn.load(). I could manage to produce a 'dll' File using cygwin which seems to be o.k. Now, using dyn.load("pcr.dll") i get: Error in dyn.load(x, as.logical(local), as.logical(now)) : unable to load shared library "c:/cygwin/home/pingu/rt-pcr/pcr.dll": LoadLibrary

Hello, I am trying to understand how to utilize the "mvr" function in the pls Package of R. I am utilizing the R "pls Package" document dated 18 May 2005 as guidance. My data set consists of a 12 x 12 data frame created from reading in a table of values. I have read the data in via the command: volumes <- read.table("THA_vol.txt", header = TRUE) and then

Hi everyone, I?m trying to do a spaghetti plot and I know I?m doing all wrong, It must be. What I need: 15 subjects, each with measurements over 5 different times (t1, ..., t5), and the variable that I need to represent in the spaguetti plot is given by: PCR = b0 + b1 * ti + epsilon B0, - baseline of each subject B1 - trajectory of each subject over time (so multiply by t) Epsilon - error

Buenos días. Hoy ando un poco (o bastante) espeso y no doy con la tecla de una cosa que seguro que es muy simple.. Pongo un ejemplo. var1 <- c(rep(0,3),rep(1,2)) var2 <- c(rep(1,2),0,0,1) var3 <- c(rep(1,2),rep(0,3)) var4 <- c(rep(1,2),rep(0,3)) datos <- data.frame(fila=1:5,var1, var2, var3, var4) datos datos fila var1 var2 var3 var4 1 1 0 1 1 1 2 2 0

Dear R-helpers, Has anybody ever tried to compare pls regression outputs from the pls.pcr R-package developped by Wehrens with outputs from the Unscrambler software developped by CAMO company ? I find very different outputs and wonder if this comes from differences between methods/algorithms SIMPLS (pls.pcr) and PLS1 (Unscrambler). Arnaud ************************* Arnaud DOWKIW Department of