Evaluate Proteolytic Digests for Proteomics Workflows
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Documentation for package ‘pepVet’ version 0.99.1
Help Pages
| aa_properties | Amino acid properties |
| annotate_cleavage_sites | Annotate cleavage-site efficiency |
| batch_compare_enzymes | Compare multiple enzymes across a full proteome |
| batch_evaluate | Batch-evaluate multiple proteins |
| calculate_peptide_mass | Calculate peptide mass or m/z |
| calculate_pI | Calculate peptide isoelectric point |
| compare_digests | Compare multiple enzymes on a single protein |
| digest_protein | Simulate a proteolytic digest |
| digest_report | Print a compact console report for a proteolytic digest |
| evaluate_digest | Evaluate a proteolytic digest |
| export_peptide_list | Export a peptide list for downstream tools |
| pepvet_check | Quick digest check for a single protein |
| pepvet_plot_config | Configure pepVet plot appearance |
| pepvet_plot_config_reset | Reset pepVet plot configuration to defaults |
| pepvet_preset | Return a named scoring preset |
| pepvet_save_figure | Save a pepVet figure with publication-ready defaults |
| pepvet_theme_manuscript | pepVet manuscript theme |
| pepvet_theme_presentation | pepVet presentation theme |
| plot_batch_comparison | Multi-enzyme proteome comparison |
| plot_cleavage_map | Cleavage Site Map |
| plot_coverage_map | Protein Coverage Map |
| plot_digest_profile | Four-Panel Digest Diagnostic Plot |
| plot_enzyme_comparison | Enzyme Comparison Chart |
| plot_gravy_landscape | GRAVY Landscape: 2D Scatter of Peptide Length vs. Hydrophobicity |
| plot_length_distribution | Standalone Peptide Length Distribution |
| plot_missed_cleavage_impact | Missed Cleavage Impact Plot |
| plot_mz_distribution | Precursor m/z Distribution |
| plot_peptide_overlap_map | Amino-Acid Peptide Overlap Map |
| plot_pI_distribution | pI Distribution: Histogram of Peptide Isoelectric Points |
| plot_proteome_overview | Proteome digest overview |
| plot_score_diagnostics | Plot score diagnostics |
| plot_weight_sensitivity | Plot weight sensitivity |
| recommend_enzyme | Return the highest-scoring enzyme for a single protein |
| score_diagnostics | Score diagnostics for pepVet scoring models |
| score_peptides | Score digested peptides for pre-acquisition review |
| sensitivity_analysis | Weight sensitivity analysis |
| summarize_batch | Summarize a batch digest evaluation |
| triage_proteins | Triage proteins from a batch evaluation |