Package: lmdme 1.55.0

Cristobal Fresno

lmdme: Linear Model decomposition for Designed Multivariate Experiments

linear ANOVA decomposition of Multivariate Designed Experiments implementation based on limma lmFit. Features: i)Flexible formula type interface, ii) Fast limma based implementation, iii) p-values for each estimated coefficient levels in each factor, iv) F values for factor effects and v) plotting functions for PCA and PLS.

Authors:Cristobal Fresno and Elmer A. Fernandez

lmdme_1.55.0.tar.gz
lmdme_1.55.0.zip(r-4.7)lmdme_1.55.0.zip(r-4.6)lmdme_1.55.0.zip(r-4.5)
lmdme_1.55.0.tgz(r-4.6-any)lmdme_1.55.0.tgz(r-4.5-any)
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lmdme_1.55.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
lmdme/json (API)

# Install 'lmdme' in R:

install.packages('lmdme', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:lmdme-1.55.0(bioc 3.24)lmdme-1.54.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

microarray onechannel twochannel visualization differentialexpression experimentdata cancer

3.78 score 1 scripts 3 mentions 24 exports 4 dependencies

Last updated from:7cf7e4ac07. Checks:1 ERROR, 7 WARNING, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	148
linux-devel-x86_64	WARNING	142
source / vignettes	OK	162
linux-release-x86_64	WARNING	225
macos-release-arm64	WARNING	79
macos-oldrel-arm64	WARNING	115
windows-devel	WARNING	86
windows-release	WARNING	83
windows-oldrel	WARNING	113
wasm-release	OK	111

Exports:biplot coef coefficients components componentsType decomposition design F.p.values fitted fitted.values leverage lmdme loadingplot model modelDecomposition p.adjust p.values permutation print resid residuals screeplot show summary

Dependencies:limma pls statmod stemHypoxia

lmdme: linear model framework for PCA/PLS analysis of ANOVA decomposition on Designed Multivariate Experiments in R

Introduction | The model | Example

Rendered fromlmdme-vignette.Rnwusingutils::Sweave

Last update: 2014-01-31
Started: 2012-09-11

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Plot a 'biplot' of a lmdme object	biplot biplot,lmdme-method
'decomposition' of lmdme object	decomposition decomposition,lmdme-method decomposition-methods
Getters for lmdme object	coef coef,lmdme-method coefficients coefficients,lmdme-method components components,lmdme-method components-methods componentsType componentsType,lmdme-method componentsType-methods design design,lmdme-method design-methods F.p.values F.p.values,lmdme-method F.p.values-methods fitted fitted,lmdme-method fitted.values fitted.values,lmdme-method model model,lmdme-method model-methods modelDecomposition modelDecomposition,lmdme-method modelDecomposition-methods p.values p.values,lmdme-method p.values-methods resid resid,lmdme-method residuals residuals,lmdme-method
'leverage' test of lmdme objects	leverage leverage,lmdme-method leverage-methods
High level constructor of lmdme class object	lmdme lmdme,formula,ANY,data.frame-method lmdme-methods
lmdme S4 class: Linear Model decomposition for Designed Multivariate Experiments.	lmdme-class
'loadingplot' of interaction PCA decomposed lmdme object	loadingplot loadingplot,lmdme-method
'p.adjust' of p-values for Multiple Test Comparison Corrections	lmdme-padjust p.adjust p.adjust,ANY-method p.adjust,lmdme-method p.adjust-methods
'permutation' of the specified lmdme object	permutation permutation,formula,data.frame,data.frame-method permutation-methods
'Show', 'Print' or 'Summary' a lmdme object	print print,lmdme-method show show,lmdme-method summary summary,lmdme-method
Plot a 'screeplot' of a PCA decomposed lmdme object	screeplot screeplot,lmdme-method