cc_composition |
Get peptides and peptide-to-protein mappings for each connected component |
cc_stats |
Provide statistics on the CCs size |
get_adj_matrix |
Generate adjacency matrix |
get_cc |
Generate graph and calculate its connected components |
peptide_stats |
Calculate percentage of shared vs specific peptides |
plot_cc |
Plot peptide-to-protein mapping graph |
read_inc_matrix |
Read incidence matrix of proteomic identifications |
reduce_inc_matrix |
Reduce size of incidence matrix for downstream analyses |
transcriptome_filter |
Perform transcriptome-informed post-hoc filtering |