add_move_phf | "Add" move |
chimera_matrix | Make chimera matrix |
expand_matrix | Expand matrix |
get_non_absrb | Get non-absorbing states |
greedy_rayDISC | Mod Ray Disc |
make.cor.matrix | # make cor rate matrix: set 0 to NA |
make_init_matrix | Create intial matix for run_hifi |
phyhifi | Create PhyHiFi object |
print.phyhifi | Print PhyHiFi object |
remove_move_phf | "Remove" move |
unique_matrix_phf | select unique matrices |
unique_matrix_phf2 | select unique matrices given two sets: check M.phf.list2... |
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