R: Tracing Information Flow for Inter-Software Comparisons in Mass Spectrometry-Based Bottom-Up Proteomics

# Tracing Information Flow for Inter-Software Comparisons in Mass Spectrometry-Based Bottom-Up Proteomics

## Documentation for package ‘flowTraceR’ version 0.1.1

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

## Help Pages

flowTraceR-package | flowTraceR: a package for standardization of level information and tracking inter-software differences in bottom-up label-free proteomics
analyze_connected_levels | Analysis of connected levels
analyze_unknown_mods | Analysis of unknown modifications
connect_traceR_levels | Connects traced levels
convert_all_levels | Conversion of software specific levels
convert_modified_peptides | Conversion of software specific modified peptide entries
convert_precursor | Conversion of software specific precursor entries
convert_proteingroups | Conversion of software specific proteinGroups
flowTraceR | flowTraceR: a package for standardization of level information and tracking inter-software differences in bottom-up label-free proteomics
get_example | Create example data
get_unknown_mods | Check of converted modifications
trace_all_levels | Trace common and unique identifications between different software outputs for all levels
trace_level | Trace common and unique identifications between different software outputs
trace_unique_common_pg | Trace unique_common categorization for proteinGroup level