| col_by_value | col_by_value | 
| convertId | convertId | 
| download_KEGGfile | download_KEGGfile | 
| download_latest_pathway | download_latest_pathway | 
| find_enriched_pathway | find_enriched_pathway | 
| KEGGprofile-package | KEGGprofile: An annotation and visualization package for... | 
| 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_pathway_overall | plot_pathway_overall | 
| plot_profile | plot_profile | 
| pro_pho_expr | expression profiles in proteome and phosphoproteome | 
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