This package is considered a duplicate. The official version of this package is found at:https://guokai8.r-universe.dev/o2plsda

Package: o2plsda 0.0.25

Kai Guo

o2plsda: Multiomics Data Integration

Provides functions to do 'O2PLS-DA' analysis for multiple omics data integration. The algorithm came from "O2-PLS, a two-block (X±Y) latent variable regression (LVR) method with an integral OSC filter" which published by Johan Trygg and Svante Wold at 2003 <doi:10.1002/cem.775>. 'O2PLS' is a bidirectional multivariate regression method that aims to separate the covariance between two data sets (it was recently extended to multiple data sets) (Löfstedt and Trygg, 2011 <doi:10.1002/cem.1388>; Löfstedt et al., 2012 <doi:10.1016/j.aca.2013.06.026>) from the systematic sources of variance being specific for each data set separately.

Authors:Kai Guo [aut, cre], Junguk Hur [aut], Eva Feldman [aut]

o2plsda_0.0.25.tar.gz
o2plsda_0.0.25.tar.gz(r-4.5-noble)o2plsda_0.0.25.tar.gz(r-4.4-noble)
o2plsda_0.0.25.tgz(r-4.4-emscripten)o2plsda_0.0.25.tgz(r-4.3-emscripten)
o2plsda.pdf |o2plsda.html✨
o2plsda/json (API)

# Install 'o2plsda' in R:

install.packages('o2plsda', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Uses libs:

openblas– Optimized BLAS
c++– GNU Standard C++ Library v3
openmp– GCC OpenMP (GOMP) support library

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

2.70 score 6 scripts 337 downloads 37 exports 34 dependencies

Last updated 4 months agofrom:6262ff9bcd. Checks:OK: 2. Indexed: no.

Target	Result	Date
Doc / Vignettes	OK	Nov 16 2024
R-4.5-linux-x86_64	OK	Nov 16 2024

Exports:AtA colsds column_sums eigenmult eigenthree getMCCV_cpp loadings loadings.O2pls loadings.o2plsda loadings.plsda o2cv o2pls opls oplsda order_cpp order_str plot.O2pls plot.o2plsda plot.plsda plsda print.O2pls print.plsda Q rcpp_rmse s2 sample_cpp sample_lapply scores scores.O2pls scores.o2plsda scores.plsda sort_str split_str summary.O2pls summary.plsda unlist_cpp vip

Dependencies:cli colorspace dplyr fansi farver generics ggplot2 ggrepel glue gtable isoband labeling lattice lifecycle magrittr MASS Matrix mgcv munsell nlme pillar pkgconfig R6 RColorBrewer Rcpp RcppArmadillo rlang scales tibble tidyselect utf8 vctrs viridisLite withr

Omics data integration with o2plsda

Kai Guo, University of Michigan

Rendered fromo2plsda.Rmdusingknitr::knitron Nov 16 2024.

Last update: 2024-07-19
Started: 2021-11-19

Help page	Topics
Extract the loadings from an O2PLS fit	loadings loadings.O2pls
extract the loading value from the O2PLSDA analysis	loadings.o2plsda
extract the loading value from the PLSDA analysis	loadings.plsda
Cross validation for O2PLS	o2cv
fit O2PLS model with best nc, nx, ny	o2pls
Class "O2pls" This class represents the Annotation information	O2pls-class
Orthogonal partial least squares discriminant analysis	oplsda
Score or loading plot for the O2PLS results	plot.O2pls
Score, VIP or loading plot for the O2PLS results	plot.o2plsda
Score, VIP or loading plot for the plsda results	plot.plsda
Partial least squares discriminant analysis	plsda
Print the summary of O2PLS results.	print.O2pls
Print the summary of plsda results.	print.plsda
Extract the scores from an O2PLS fit	scores
Extract the scores from an O2PLS fit	scores.O2pls
Extract the scores from an O2PLS DA analysis	scores.o2plsda
Extract the scores PLSDA analysis	scores.plsda
Summary of an O2PLS object	summary.O2pls
Summary of an plsda object	summary.plsda
Extract the VIP values from the O2PLS-DA object	vip

Package: o2plsda 0.0.25

o2plsda: Multiomics Data Integration

Omics data integration with o2plsda

Citation

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)