R: Standardized Comparison of Workflows in Mass Spectrometry-Based Bottom-Up Proteomics

# Standardized Comparison of Workflows in Mass Spectrometry-Based Bottom-Up Proteomics

## Documentation for package ‘mpwR’ version 0.1.5.1

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

create_example | Create example data
get_CV_LFQ_pep | Peptide-level: Quantitative precision
get_CV_LFQ_pg | Proteingroup-level: Quantitative precision
get_CV_RT | Retention time precision
get_DC_Report | Data Completeness Report
get_ID_Report | Report for identifications
get_MC_Report | Report about Missed Cleavages
get_summary_Report | Summary report
get_Upset_list | Generate Upset list
load_experimental_design | Load and Prepare the input data with experimental design file
plot_CV_density | Density plot
plot_DC_barplot | Individual Barplots - Data Completeness
plot_DC_stacked_barplot | Summary Barplot - Data Completeness
plot_ID_barplot | Individual Barplots - Identifications
plot_ID_boxplot | Summary Boxplot - Identifications
plot_MC_barplot | Individual Barplots - Missed Cleavages
plot_MC_stacked_barplot | Summary Barplot - Missed Cleavages
plot_radarchart | Radar chart
plot_Upset | Upset Plot
prepare_mpwR | Load and Prepare the input data
write_experimental_design | Create template for experimental design
write_generic_template | Create generic template