rlib

Introduction

Miscellaneous R support functions for data science and machine learning.

Credit Rudolf N. Cardinal

Installation

Install R and R Studio

and

source("https://raw.githubusercontent.com/neelsoumya/rlib/master/INSTALL_MANY_MODULES.R")

For a restricted installation

install.packages('devtools')
library(devtools)

devtools::install_github('neelsoumya/rlib')

Usage

You can source the latest version from Github. For example, to "source" the miscstat.R file from R, you can do this:

source("https://raw.githubusercontent.com/neelsoumya/rlib/master/miscstat.R")

Example

source("https://raw.githubusercontent.com/neelsoumya/rlib/master/cris_common.R")

see

logistic_regression_roc_curve_withCV.R

https://github.com/neelsoumya/rlib/blob/master/logistic_regression_roc_curve_withCV.R

cris$visualize_fixed_effects_from_lmer(name of lmer or glmer model)

cris$fixed_effects_from_lmer(name of lmer or glmer model)

Files

logistic_regression_roc_curve_withCV.R logistic regression model with CV cross validation and plotting of log-odds odds ratios and AUPR and AUC curves

https://github.com/neelsoumya/rlib/blob/master/logistic_regression_roc_curve_withCV.R

survival_analysis_example.rmd script for survival analysis

rmarkdown_analysis_template.rmd template R markdown for reproducible analysis

also see

https://github.com/neelsoumya/teaching_reproducible_science_R/blob/main/rmarkdown.rmd

heatmap_script.R script for heatmap

fn_redorder_dendrogram.R script for reordering labels in heatmaps

convert_aupr_to_ggplot.R convert AUPR plot to ggplot for pretty plotting

lmer_confidence_intervals.R confidence intervals for lmer linear mixed effects model

Acknowledgements

Rudolf N. Cardinal

Contact

Soumya Banerjee and Rudolf Cardinal