# Simulation tool for optimal design of high-dimensional MS-based proteomics experiment

## Documentation for package ‘MSstatsSampleSize’ version 1.8.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

classification_results | Example of output from designSampleSizeClassification function
designSampleSizeClassification | Estimate the mean predictive accuracy and mean protein importance over all the simulated datasets
designSampleSizeClassificationPlots | Visualization for sample size calculation in classification
designSampleSizeHypothesisTestingPlot | Sample size calculation plot for hypothesis testing
designSampleSizePCAplot | PCA plot for each simulation
estimateVar | Estimate the mean abundance and variance of each protein in each condition.
meanSDplot | Mean-SD plot
MSstatsSampleSize | MSstatsSampleSize: A package for optimal design of high-dimensional MS-based proteomics experiment
OV_SRM_train | The training set from a study for subjects with ovarian cancer
OV_SRM_train_annotation | Annotation file for 'OV_SRM_train',
simulateDataset | Simulate datasets with the given number of biological replicates and proteins based on the input _data_
simulated_datasets | Example of output from simulateDataset function
variance_estimation | Example of output from estimateVar function