Package: loadings 0.5.1

loadings: Loadings for Principal Component Analysis and Partial Least Squares

Computing statistical hypothesis testing for loading in principal component analysis (PCA) (Yamamoto, H. et al. (2014) <doi:10.1186/1471-2105-15-51>), orthogonal smoothed PCA (OS-PCA) (Yamamoto, H. et al. (2021) <doi:10.3390/metabo11030149>), one-sided kernel PCA (Yamamoto, H. (2023) <doi:10.51094/jxiv.262>), partial least squares (PLS) and PLS discriminant analysis (PLS-DA) (Yamamoto, H. et al. (2009) <doi:10.1016/j.chemolab.2009.05.006>), PLS with rank order of groups (PLS-ROG) (Yamamoto, H. (2017) <doi:10.1002/cem.2883>), regularized canonical correlation analysis discriminant analysis (RCCA-DA) (Yamamoto, H. et al. (2008) <doi:10.1016/j.bej.2007.12.009>), multiset PLS and PLS-ROG (Yamamoto, H. (2022) <doi:10.1101/2022.08.30.505949>).

Authors:Hiroyuki Yamamoto

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loadings.pdf |loadings.html
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NEWS

# Install 'loadings' in R:
install.packages('loadings', repos = c('https://hiroyukiyamamoto.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/hiroyukiyamamoto/loadings/issues

Datasets:
  • antibiotic - Metagenome and metabolome data from antibiotic-treated mouse feces.
  • covid19 - Proteome and metabolome data of COVID-19 serum samples.
  • fasting - Metabolome analysis of mouse liver samples in fasting conditions
  • greentea - Metabolome analysis of Japanese green tea
  • turnover - Metabolomic Turnover analysis of the yeast culture mediums
  • whhl - Metabolome analysis of plasma, liver, heart and brain samples from rabbits with hyperlipidemia.

On CRAN:

19 exports 2 stars 1.56 score 1 dependencies 1 dependents 26 scripts 689 downloads

Last updated 5 months agofrom:4db6fecf5c. Checks:OK: 1 NOTE: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKAug 29 2024
R-4.5-winNOTEAug 29 2024
R-4.5-linuxNOTEAug 29 2024
R-4.4-winNOTEAug 29 2024
R-4.4-macNOTEAug 29 2024
R-4.3-winNOTEAug 29 2024
R-4.3-macNOTEAug 29 2024

Exports:multipls_geigenmultipls_loadingmultipls_rogmultiplsrog_loadingone_kpcaonekpca_loadingos_pcaospca_loadingpca_loadingpls_dapls_loadingpls_rogpls_svdplsda_loadingplsrog_loadingrcca_darcca_loadingunsv_multiplsunsvmultipls_loading

Dependencies:geigen

Readme and manuals

Help Manual

Help pageTopics
Metagenome and metabolome data from antibiotic-treated mouse feces.antibiotic
Proteome and metabolome data of COVID-19 serum samples.covid19
Metabolome analysis of mouse liver samples in fasting conditionsfasting
Metabolome analysis of Japanese green teagreentea
Multiset PLS : Multiset partial least squaresmultipls_geigen
Multiset partial least squares loadingmultipls_loading
Multiset PLS-ROG : Multiset partial least squares with rank order of groupsmultipls_rog
Multiset partial least squares rank order of groups loadingmultiplsrog_loading
One-sided kernel principal component analysisone_kpca
One-sided kernel principal component loadingonekpca_loading
Orthogonal smoothed principal component analysisos_pca
Orthogonal smoothed principal component loadingospca_loading
Principal component loadingpca_loading
Partial least squares discriminant analysis (PLS-DA)pls_da
Partial least squares loadingpls_loading
PLS-ROG : Partial least squares with rank order of groupspls_rog
Partial least squarespls_svd
Partial least squares discriminant analysis (PLS-DA) loadingplsda_loading
Partial least squares rank order of groups loadingplsrog_loading
Regularized canonical correlation analysis for discriminant analysis (RCCA-DA)rcca_da
Regularized canonical correlation analysis (RCCA-DA) loadingrcca_loading
Metabolomic Turnover analysis of the yeast culture mediumsturnover
Unsupervised multiset partial least squaresunsv_multipls
Unsupervised multiset partial least squares loadingunsvmultipls_loading
Metabolome analysis of plasma, liver, heart and brain samples from rabbits with hyperlipidemia.whhl