alifestd_mark_ot_mrca_asexual

alifestd_mark_ot_mrca_asexual(phylogeny_df: ~pandas.core.frame.DataFrame, mutate: bool = False, *, mark_as: str = 'ot_mrca', progress_wrap: ~typing.Callable = <function <lambda>>) → DataFrame

Appends columns characterizing the Most Recent Common Ancestor (MRCA) of the entire extant population at each taxon’s origin_time.

The output column name prefix can be changed via the mark_as parameter.

The extant population is defined in terms of active lineages: any branch of the tree existing at an origin_time which contains at least one descendant at or after that time.

New Columns:

ot_mrca_idint

The unique identifier of the MRCA for the population that was extant at this organism’s origin_time.

ot_mrca_time_ofint or float

The origin_time of that MRCA.

ot_mrca_time_sinceint or float

The duration elapsed between the MRCA’s origin_time and this taxon’s origin_time.

A chronological sort will be applied if phylogeny_df is not chronologically sorted. Dataframe reindexing (e.g., df.index) may be applied.

Input dataframe is not mutated by this operation unless mutate set True. If mutate set True, operation does not occur in place; still use return value to get transformed phylogeny dataframe.