Questions tagged [partial-least-squares]
A class of linear methods for modeling the relationship between two groups of variables, X and Y. Includes PLS regression.
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Obtaining Residual Sum of Squares from a large OLS problem using a naive sequential approach - why doesn't it work?
Suppose we have an OLS problem with a large number of predictors: $Y = X_1 + X_2 + \cdots + X_p$.
I want to obtain its RSS. I don't need to know the regression coefficients or individual residuals, ...
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Can I use clustering to compare diseases, after partial least squares correlation?
I have two datasets from patients with different diseases, which contain multiple measures of regional brain function and performance on different memory tasks. The memory tasks used in each dataset ...
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Why am I getting negative components with my custom NIPALS algorithm
I've recently been learning about the Nonlinear Iterative Partial Least Squares (NIPALS) algorithm for computing the principal components of a dataset. I am trying to code a NIPALS class from scratch ...
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How to interpret PLS-MGA’s results based on the significance of the corresponding group specific path coefficients
As a more general follow-up question to Elisa’s post on “[h]ow to interpret regression coefficients” when carrying out a PLS-structural-equation-modeling multigroup analysis (PLS-MGA), when comparing ...
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So significant serial mediating effect, but there is a significant mediating effect when the individual mediators are explored?
The statistical analysis used was PLS-SEM using WarpPLS.I have four variables, with 1 IV (W), 1 DV (Z), and 2 mediators (X and Y)
I was able to find that when run through W -> X -> Y -> Z the ...
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References for SIMPLS - Partial Least Squares
I am currently learning partial least squares analysis. I understand the idea, and the method I know to get PLS is NIPALS. Since I am currently writing a paper about this subject, I want to learn ...
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PLSR: trait vs spectroscopic data gives very low R2 on plsr model in R
here is the sample data.
I have spectroscopy data as X-variables (from X1 to X80) and corresponding Y variable.
I need to run plsr model in R using "pls" package. There are two sheets. In ...
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Could I remove LOCs of an HOC to have the compositional invariance?
So, I am testing a theory, proposed in the literature, and I want to do a multigroup analysis on it. One of the HOCs(reflective) of the model has three LOCs(all reflective); when I run the tests on ...
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How to predict Y using PLS-Canonical model given the X matrix?
Recently I've been learning Partial Least Squares (PLS), and learned that there are some variations of PLS, namely PLS-Canonical, PLS-SVD, PLS2 and PLS1 (mainly from the User Guide of PLS classes in ...
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PLS model on wide dataset with 60 samples and 120 variables
Data health for PLS modeling
Hi,
I am working on a manufacturing data that is fairly new (only has 60 batches produced so far) dataset size is 60 observations of 150 variables and I am building a PLS ...
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Reflective-formative higher-order construct path issue in PLS-SEM
I have a reflective-formative higher-order construct that combines seven reflective first-order constructs. I validated this higher-order construct in a study using the PLS-SEM method in which all ...
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partial least squares structural equation modeling
I am creating a model and analyzing the relationships between the variables using the partial least squares structural equation. I have some questions regarding this method
What do negative values of ...
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Sparse Partial Least Square: Variables in Components
I had 53 variables that I wanted to associate with response so I have performed sparse formulation of PLS and have one component which is optimally associated with response variable. This component is ...
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Preprocessing of spectroscopy data for PLSR: do I need to normalize the data for every wavelength?
I want to apply a partially least square regression on spectroscopy data to model a chemical content of my probe. So, every wavelength of the spectrum serves as one variable in the model. Doing some ...
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Canonical covariance for PLS in R
My question is quite simple, I don't have the answer though. I am working on some benchmark analysis to compare multivariate analyses, such as canonical correlation analysis or partial least squares. ...
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Choosing Which latent variables to display and analyze
Attached is a plot of the R-squared for each additional latent variable (LV) included in a PLSR.
When choosing which LVs to display on a biplot (and ultimately determining which factors best explain ...
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high feature correlation but good OLS prediction
I have regression results where unconstrained OLS is near optimal - out of sample scores are almost the best when compared to some other constrained regression models. Although the ratio of number of ...
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Comparison of RMSE (root mean squared error) values
I want to see if my models work better univariate or multiple. But how can I do this? Normally I train the model, calculate the RMSE/MSE on the test data and compare these values. Now I trained the ...
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PLS and LDA analogies
I need some information to clarify some concept about PLS, LDA.
LDA is able to decompose the independent variable to maximize the classes separation. the approach used is to develop a PCA on the ...
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Partial least squares component selection and overfitting
I am using partial least squares (PLS) to build a model using highly correlated data. I run a cross validation and get two well performing models:
RMSE 1.39 and R2 0.76 which uses 8 components
RMSE 1....
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Number of Principal Components in Principal Component Regression (PCR) with pcr and cross-validation implementation in R
I have a dataset with 401 predictors of 60 samples. It's from the Matlab Statistics and Machine Learning Toolbox: spectra.mat. I wanted to perform PCR on this dataset und afterwards determine the ...
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Cross validation of PLS-DA model
I have already asked this question in StackOverflow (https://stackoverflow.com/questions/74632176/how-can-i-cross-validate-the-classification-model), however, I would like to share it here as well, ...
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Reasoning behind variable importance in projection (VIP score)?
I have been using partial least squares regression to do latent variable modeling of a few data sets. Now I am wanting to look at variable importance but am getting stumped on the reasoning behind the ...
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PLS reporting correlation
I am very very new to PLS and haven't spent much time reading theory, but I have been nudged by my supervisor to use it to report some statistics for my thesis.
I am currently using XLSTAT, and have 4 ...
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Is it sound to use PLS components in a model trained with the same response?
I have some high-dimensional spectral data I want to use in modeling plant productivity using a supervised model like random forest. I want to use the model for inference as well as for prediction in ...
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Why does X @ coef_ + intercept_ does not equal Y_pred for sklearn PLSRegression?
I performed partial least squares regression using Python's sklearn.cross_decomposition.PLSRegression using the example data in the sklearn docs. I am surprised that X @ coef_ + intercept_ does not ...
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In using PLS for feature selection, is directionality between X and Y necessarily implied?
In systems epidemiology such as in metabolomics, sometimes we are interested in identifying putative biomarkers of intake e.g., intake of a food item. So we analyse the metabolome to investigate ...
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Is it possible to predict on new data using PLS SEM?
Using the seminr package in R, I have fitted a model based on PLS SEM with several exogenous (latent) variables and one endogenous latent variable (ELV) measured by ...
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How to work with Proportion of variance explained in PLS Regression?
I have some very basic questions regarding PLS.
I ran PLS using SPSS on small dataset.
n=312,
Dependent variable=1;
Independent Variables=9.
Here is the output of Proportion of Variance Explained.
As ...
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Regression in data with one group, having just zeros as outcome
I have a data set, consisting of positive and negative patients (virus infection). If the patient is negative, it has 0 as outcome (y), if it is positive it has a positive value, up to 100. The input (...
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R-square vs. NFI?
I ran a path model (no latent variables) in smartPLS3. It's not a complicated model. But after the analysis was computed, I checked the model fit measures. R-squares are small (all of them < .3), ...
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Transformation of data
I have a question regarding transformation of data. I have handled some data with both negative and positive elements by using the transformation:
log(Y+1-min(Y))
which is all good. The problem is ...
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How to convert SMART-PLS structural coefficients from standardized (correlation) to unstandardized?
I need use smartPLS but i also have prediction purpose (coefficients should also act like b-coefficients of regression). How to do this in smartPLS, since all coefficients are standardized?
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Partial covariance matrix after linear transformations
Let $X=(X_1,\ldots,X_n)$ and $Y=(Y_1,\ldots,Y_m)$ be two multivariate random variables.
We denote with $\Sigma(X)$ the $n\times n$ covariance matrix $\text{cov}(X_i,X_j)$ and with $\Sigma(X,Y)$ the $n\...
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I don't completely understand the concept of PCA analysis [closed]
First of all, PCA analysis is not something I came across in my economics studies. But, recently, I wanted to make a PCA analysis of American GDP.
I started to read about the fundamentals of PCA and ...
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Partial Least Squares NIPALS Algorithm Question: How is w chosen to maximize cov(Xw, Y) [duplicate]
Recently I found a nice slideshow that explains PLS and the idea behind it pretty well. I think I understand the majority of the slides but I'm a bit confused with the first step of the NIPALS ...
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Highly Correlated Datasets - Why and What Next?
I've got three datasets (of different biological data) that are highly correlated - such that if I use the typical findCorrelation from the ...
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LDA followed by multiple PLS models OR PLS2 to include both the continuous dependent variable and the categorical variable
I have 1200 spectral Xvariables.
I use PLS-LDA to reduce Xvariables and classify them in groups (contaminants).
After that I need to quantify the "amount" of contaminant by PLS.
First I ...
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Using Partial Least Squares as a generative model
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The partial Least Squares (PLS) method is often used to model Latent Variable Regression (LVRs). At the end of the PLS algorithm, we have the loadings and scores. My question is, can we construct a ...
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Distribution of imputed values and multivariate analysis
Below you'll find two plots showing the Q-Q plot (top) and histogram (bottom) of two variables. The aim is to use them, together with others, with sPLS and other multivariate methods for regression ...
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The last step of PLSR
Here is the reference of NIPALS for PLSR:
https://learnche.org/pid/latent-variable-modelling/projection-to-latent-structures/how-the-pls-model-is-calculated
I cannot understand the last step, to find ...
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one dimension PLS
We know one of the definition of partial least squares (PLS) is:
$$\max\limits_{\alpha_x,\alpha_y}Cov(\alpha_x^Tx,\alpha^T_yy)$$
$$||\alpha_x|| = ||\alpha_y|| = 1.$$...
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Textbook suggestion: Multivariate Data Integration and PLS
Apparently Partial Least Squares regression is very used in my field of research. I am looking for an applied textbook that covers Multivariate Data Integration methods, especially PLS and ideally its ...
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Advanced book multivariate statistics
I am looking for a somewhat advanced book on multivariate statistics. I don't mind if there is a lot of math in it, and I prefer R above SPSS. I'm looking specifically for a book that mentions PCA, ...
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What are y_weights, y_loadings and y_rotations in sklearn PLS
The partial least squares is an algorithm that seeks to decompose two data matrices $X$ and $Y$ based on a latent structure of the form:
$$X=TP+E$$
$$Y=UQ+F$$
where $T$ and $U$ are score matrices, and ...
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What is the PLSR implementation in sklearn?
Having a look to the source code from sklear implementation of PLSRegression I see two differences between what they cite as ...
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Variation on partial least squares regression (PLSR) that does not assume linear relationships between variables
Partial least squares regression (PLSR) is a statistical technique that allows you to predict multiple response variables from multiple predictor variables. It works by essentially running separate ...
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Multicollinearity and case:predictor ratio problems
I have 444 cases and 60ish predictors that suffer from collinearity. The predictors fall into three categories (vol, thickness and demographics). I would prefer to subdivide my cases into 4 (age) ...
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How can I summarize latent variables using PLSSEM
I am kinda new to PLS SEM, but I think I have the steps down and can interpret the results. However, I initially like to look at summary statistics of variables when a single variable measure a ...
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Do loadings in PCA describe variation around the mean?
I found this statement in one paper about statistical process control and monitoring:
The P loading matrices contain all the structural
information about how the variable measurements should deviate
...
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