| load_pangenomeRDS | Load A Pagoo Pangenome |
| pagoo | Create a Pagoo Object |
| panaroo_2_pagoo | Read panaroos's output into a pagoo's R6 class object |
| PgR6 | PgR6 basic class |
| PgR6M | PgR6 class with methods. |
| PgR6MS | PgR6 class with Methods and Sequences. |
| roary_2_pagoo | Read roary's output into a pagoo's R6 class object |