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| col_by_value | col_by_value |
| convertId | convertId |
| download_KEGGfile | download_KEGGfile |
| download_latest_pathway | download_latest_pathway |
| find_enriched_pathway | find_enriched_pathway |
| newIdMatrix | newIdMatrix |
| parse_XMLfile | parse_XMLfile |
| pho_sites_count | number of phosphorylation sites quantified for each gene |
| plot_pathway | plot_pathway |
| plot_pathway_cor | plot_pathway_cor |
| plot_profile | plot_profile |
| pro_pho_expr | expression profiles in proteome and phosphoproteome |