Man pages for Vitek-Lab/MSstatsSampleSize
Simulation tool for optimal design of high-dimensional MS-based proteomics experiment
| classification_results | Example of output from designSampleSizeClassification... |
| designSampleSizeClassification | Estimate the mean predictive accuracy and mean protein... |
| designSampleSizeClassificationPlots | Visualization for sample size calculation in classification |
| designSampleSizeHypothesisTestingPlot | Sample size calculation plot for hypothesis testing |
| designSampleSizePCAplot | PCA plot for each simulation |
| dot-catch_faults | Catch Faults |
| dot-classification_model | Fit a classification model |
| dot-classification_performance | For each simulated dataset, calculate predictive accuracy on... |
| dot-data_checks | Data Checking |
| dot-do_prcomp | Do Principal Component Analysis |
| dot-feature_importance | Feature Importance |
| dot-format_summary_table | Get summary table for the annotation data |
| dot-identify_optimal | Identify optimal sample size |
| dot-logGeneration | Create log file |
| dot-log_write | Write Log |
| dot-pca_plot | Plot PCA outputs |
| dot-plot_acc | Plot Accuracy |
| dot-plot_imp | Plot Variable Importance |
| dot-quantile_eval | Evaluate quantiles given vectors and probability |
| dot-randomImputation | For each protein, impute the missing values based on the... |
| dot-sampleSimulation | Simulate extended datasets for sample size estimation |
| dot-status | Status updates |
| estimateVar | Estimate the mean abundance and variance of each protein in... |
| h2o_config | H2o configuration |
| meanSDplot | Mean-SD plot |
| MSstatsSampleSize | MSstatsSampleSize: A package for optimal design of... |
| OV_SRM_train | The training set from a study for subjects with ovarian... |
| OV_SRM_train_annotation | Annotation file for 'OV_SRM_train', |
| qc_boxplot | Plot QC boxplots |
| simulateDataset | Simulate datasets with the given number of biological... |
| simulated_datasets | Example of output from simulateDataset function |
| simulate_grid | Simulate datasets to be tested out |
| ss_classify_caret | Classsification caret |
| ss_classify_h2o | Classify using h2o classification algorithms |
| theme_MSstats | MSstats Theme |
| variance_estimation | Example of output from estimateVar function |
