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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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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Centering and scaling in Partial Least Squares
I am trying to understand, how data is centered and scaled in Partial Least Squares (PLS). I understand how it is done in Principal Component analysis (PCA).
For example, in PCA test-data is centered ...
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Explaination of Orthogonal Partial Least Squares (OPLS)
I am rather familiar with PLS and understand that it is composed of 3 iterated steps:
finding directions $\vec{v}$, $\vec{w}$ such that the correlation E[($\vec{x}$$\vec{v}$)($\vec{y}$$\vec{w}$)] is ...
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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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How can I do continuum regression in R?
I am looking for a R package that does continuum regression. More concrete I need a function that does continuum regression s.t. I can evaluate the values afterwards. At least extracting MSE or RMSE ...
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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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Decomposition of oil price
For a project I want to recreate the graph "Cumulative Weekly Decomposition" from:
https://www.newyorkfed.org/medialibrary/media/research/policy/oil_decomposition/oil-decomp_2022-0328.pdf?la=...
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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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Nuisance covariates in partial least squares analysis
I have six correlated phenotypic variables (e.g. height, weight, waist circumference) and I wish to see how these relate to a single continuous genetic variable. The sample size is large (n>30,000)
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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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Using Partial Least Squares for reduced-dimension machine learning
I want to perform dimensionality reduction using Partial Least Squares on a complex, large-dimension data set before training various regression models on the reduced-dimension data set. I understand ...
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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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Partial least squares model reduction
I wonder if there could be any problem with the following approach. I run partial least squares analysis on 3 responses of interest and all available predictors (110).
Then I check VIP (variable ...
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How do you decide how many factors to choose in PLS after plotting loocv graph?
I obtained this graph from plotting errors made while doing loocv vs no. of components. As expected the pls went down to 0 error but how do I choose number of components?
I tried running the test set ...
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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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How to get construct scores when using mode_B in R using SeminR package
I am trying to get construct scores in R using SeminR package. When I use mode_A there is no problem. I can produce scores. But with mode_B I am not able to produce scores. Can someone please explain ...
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PLS-SEM with only one latent construct
I am currently reading a paper that utilizes partial least squares (PLS) to estimate a structural equation model (SEM). What bothers me a bit is the structure of their given model in combination with ...
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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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Noisy PLS-DA loading for a model with good performance
What does it mean to have a good PLS-DA model (in terms of both sensitivity and specificity on independent test set), but very noisy loadings (the data is IR spectrum, and it lost its spectral shape ...
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Multiple dim responding variable the relation between CCA and trivial linear regression (PLSR, CCA, PCA, PCR and Linear Regression)
Here is my summary of Multivariate Linear Regression between explain variable $\textbf{x}$ and responding variable $\textbf{y}.$ I have summaried the relation ...
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How does PLSR solve Multicollinearity
We know that PLSR is a very common way to solve Multicollinearity in the Multiple Linear Regression. But do you know how does it work in detail? And why Multicollinearity of $x$ will be related to the ...
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PLS: Find number of components for multiple dependent variables
I created a PLS model with three dependent variables using mdatools. Variable A gets the best results when using two components. However for variables B and C it would be better to use four components....
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How to interpret null or nearly null coefficients with VIP > 1 in PLSR?
I try to interpret a PLSr model that I used to predict a response variable using full range spectroscopy (500 - 2400 nm). I followed the method from Serbin et al. 2014 (https://doi.org/10.1890/13-2110....
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PLS regression - VIP treshold to exclude variables
I have been developing PLS models in the software SIMCA. To optimize the model and decide which variables to exclude, I use the VIP (Variable Importance in Projection [1,2]) and in the software ...
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PLS Regression - RMSEP minimum value
I use the plsr function in R with cross validation (10-fold). As a result, I get this output:
From my limited understanding, I know that the ideal number of components is usually chosen by the ...
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What does it mean to say that a regression method is (not) "scale invariant"?
I was just studying partial least squares regression, and I read that it is "not scale invariant". What does "scale invariant" mean, and why is partial least squares, and why would ...
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What's behind PLS regression method?
I was wondering if anyone could provide me a source with a more or less simple explanation to the PLS regression process? I have been reading this paper to help me understand what's behind the PLS, ...
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PLS-DA dependent variables
Is it possible to use more than one categorical dependent variable with partial least square discriminant analysis?
Thanks.
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PLS procedure in SAS software
experts, I have a question about PLS procedure in SAS. The manual said that the prediction on new data is by combining training data and new data (new data dont have response values).
I did ...
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Variable of importance and Q2Y in PLSR
In Partial Least Squares Regression, we can set a threshold to variable of importance scores to extract variables that have significant influence over the output. We can then reduce the model size to ...
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Explained variation in PLS vs PCA
A lot of research articles outline that the number of extracted factors by PLS (partial least squares) is less than the number of extracted factors by PCA (principal component analysis). However, the ...
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Difference between sequential/simultaneous nonlinear partial least squares and NIPALS algorithm
I've been reading about nonlinear partial least squares, and according to the below study, there are two types of NLPLS: sequential NLPLS and simultaenous NLPLS.
https://www.sciencedirect.com/science/...
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Value for ncomp when making predictions for PLSR model
Using the seatpos dataset from the faraway package in R, I wanted to do PLS regression models with up to eight components, ...
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Can a trained Partial Least Squares (PLS) model be used for lossy compression/encoding?
Once I have carefully trained a PLS model, I know the optimal number N of components for a regressor model.
Can those components and their coefficients be used to lossy compress the original data ...
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