Man pages for mirnavazquez/RbiMs
R Tools for Reconstruncting Bin Metabolisms
| calc_binary | Calculate presence/absence. |
| calc_percentage | Calculate the percentage. |
| get_subset_pathway | Subsets the mapped KO table based on pathways. |
| get_subset_pca | Metabolism PCA. |
| get_subset_unique | Unique abundance profile. |
| interpro_INTERPRO_long | interpro_INTERPRO_long |
| interpro_INTERPRO_profile | interpro_INTERPRO_profile |
| interpro_KEGG_long | interpro_KEGG_long |
| interpro_map | interpro_map |
| interpro_pfam_long | interpro_pfam_long |
| interpro_pfam_profile | interpro_pfam_profile |
| ko_bin_mapp | Output of mapping_ko |
| ko_bin_table | Output of read_ko |
| mapping_ko | Maps KOs to the KEGG database. |
| metadata | Metadata |
| pipe | Pipe operator |
| plot_bubble | Bubble plot. |
| plot_heatmap | Heatmap |
| rbims | Main Rbims |
| read_dbcan3 | Read the output of dbCAN and extract abundance profile |
| read_interpro | Extract abundance profile of InterProScan output. |
| read_ko | Read the output of KofamScan/KofamKoala or KAAS. |
| read_ko_shiny | Read the output of KofamScan/KofamKoala or KAAS. |
| read_picrust2 | Read the output of PICRUSt2 |
| write_metabolism | Metabolism table |
