PLSR_from_file_and_predict_second_dataset: Partial Least Squares and predict second dataset

In graeberlab-ucla/glab.library: Data Analysis Functions

Partial Least Squares and predict second dataset

Description

Builds PLS model from training dataset and predicts second dataset Writes out predicted.scores of the second dataset Plots original PLS, projected samples only, and projected samples ontop of original PLS

Usage

PLSR_from_file_and_predict_second_dataset(
  file,
  file2,
  sample.names,
  sample.type,
  y.response,
  sample.names2 = NULL,
  sample.type2 = NULL,
  train_string,
  title = "PLSR",
  comp.x = "comp1",
  comp.y = "comp2",
  comps = 5,
  scale = F,
  labels = F,
  fread = FALSE
)

Arguments

file	file for X matirx
file2	file for test data matrix
sample.names	Vector of sample names in X matrix
sample.type	vector of sample groups
y.response	numeric vector of response values in same order as samples
sample.names2	Vector of sample names in 2nd dataset, if needed
sample.type2	Vector of sample types in 2nd dataset, if needed
train_string	string to insert in file name of predicted scores
title	title of the plot
comp.x, comp.y	comps to display
comps	number of components to compute
scale	default=T
labels	label the plot, default = T
fread	default=F, use fread for large input files

graeberlab-ucla/glab.library documentation built on Oct. 28, 2024, 10:48 a.m.