use_glmnet_old.Rd

% Generated by roxygen2: do not edit by hand
% Please edit documentation in R/z_old_functions.R
\name{use_glmnet_old}
\alias{use_glmnet_old}
\title{Use glmnet}
\usage{
use_glmnet_old(
  summarized_experiment,
  index_class = 3,
  gene_names = NULL,
  model_matrix = NULL,
  predictors = NULL,
  alpha = 0.5,
  return_plot = F,
  verbose = T,
  parallel = T,
  no_cluster = NULL,
  seed = NULL,
  ...
)
}
\arguments{
\item{summarized_experiment}{A SummarizedExperiment object}

\item{index_class}{Integer - Index of assay containing classification of samples in modes/groups}

\item{gene_names}{Character - Set of bimodal genes to use in regression}

\item{predictors}{Character - Set of column names to be used as predictors in regression}

\item{return_plot}{Logical - If set to true, the output is a list of the Regression  results and a correlation plot with AUC plot.}

\item{verbose}{Logical - Show Progress of function, not in parallel}

\item{seed}{Integer - Number for set.seed}

\item{...}{Parameters for glmnet}

\item{exclude}{character vector - factors/columns to be excluded. You dont want to include factors which are more like observatory variables as opposed to possible explanatory variables in the analysis.}
}
\description{
This function uses glmnet to test which variable of a selected factor is described by other variables in the data set.
}