abundances |
Abundance table for 199 samples. |
all_ranks |
Ranks handled by 'yatah' |
get_all_clades |
Extract all clades present in the lineages |
get_clade |
Extract the clade of a desired rank in a lineage |
get_last_clade |
Extract the last clade of a lineage |
get_last_rank |
Extract the last rank of a lineage |
is_at_least_rank |
Test if a lineage goes down to a specified rank |
is_clade |
Test if a lineage belongs to a clade |
is_lineage |
Test if a string is a lineage |
is_rank |
Test if a lineage goes down to a specified rank |
taxtable |
Taxonomic table |
taxtree |
Taxonomic tree |
trim_common |
Trim lineages until the shallowest common rank. |
trim_rank |
Trim lineages until a specified rank |
trim_void |
Trim void ranks in lineages |