The goal of glystats is to perform statistical analysis on glycoproteomics and glycomics data. It works seamlessly with the glyexp package.
We recommend installing the meta-package glycoverse, which includes this package and other core glycoverse packages.
If you don’t want to install all glycoverse packages, you can only install glystats.
You can install the latest release of glystats from r-universe (recommended):
# install.packages("pak")
pak::repo_add(glycoverse = "https://glycoverse.r-universe.dev")
pak::pkg_install("glystats")Or from GitHub:
pak::pkg_install("glycoverse/glystats@*release")Or install the development version (NOT recommended):
pak::pkg_install("glycoverse/glystats")Note: Tips and troubleshooting for the meta-package glycoverse are also applicable here: Installation of glycoverse.
glystats is the downstream analysis package in the glycoverse
ecosystem. It provides statistical analysis functions for
glyexp::experiment() objects. A common workflow is to use
glyread to import data,
glyclean to preprocess data,
and then glystats to perform statistical analysis.
Say we already have a preprocessed experiment object called exp:
# Two-sample t-test
ttest_res <- gly_ttest(exp)
# PCA analysis
pca_res <- gly_pca(exp)
# ROC analysis
roc_res <- gly_roc(exp)That’s it! These functions use glycoverse column conventions to load
needed data and perform analysis. All functions start with gly_ to
leverage the auto-completion in RStudio. They accept an
glyexp::experiment() object, and return analysis result as a tibble or
a list of tibbles. See documentation for each function for more details.