Man pages for MiguelCos/fragNterminomics
Annotation and processing of peptides from FragPipe search results
| annotate_nterm | Annotate peptides based on their N-terminal (bio)chemical... |
| annotate_peptides | Annotate peptides based on their enzyme specificity and... |
| categorize_nterm | Categorize and count N-terminal peptides based on Uniprot... |
| count_location_nterm | Generete counts of N-terminal TMT-labelling and acetylation... |
| fasta | Protein sequences of identified proteins |
| feature_fdr_correction | Apply multiple-testing p-value adjustment on specified... |
| get_cleave_area | Prepare sequences for motif analysis of cleavage areas |
| list_peptides | Title |
| pept_abund_mat | Peptide abundance data frame |
| peptide2protein_normalization | Normalize peptide abundance by protein abundance |
| peptide_matrix_count | Convert a character vector of peptides to a matrix of amino... |
| pept_ident | Peptides identified and associated modifications |
| prot_abund_mat | Protein abundance data frame |
| proteins_from_psms | Proteins from unique PSMs |
| prot_ident | Proteins identified and associated modifications |
| psmtsv_to_modified_peptides | Process 'psm.tsv' file into modified peptides |
| purify_n_normalize | Purify quant and normalize |
| sample_annotation | Sample annotation table |
| sample_proteins | Pseudo-random sampling of protein IDs from a character vector |
| summarize_peptide_counts | Summarize counts of peptide identifications |
