Index

A

Alignment (class in phytest.bio.alignment) assert_branch_lengths() (phytest.bio.tree.Tree method) assert_columns() (phytest.bio.data.Data method) assert_contains() (phytest.bio.data.Data method) (phytest.bio.sequence.Sequence method) assert_count() (phytest.bio.sequence.Sequence method) assert_count_gaps() (phytest.bio.sequence.Sequence method) assert_count_Ns() (phytest.bio.sequence.Sequence method) assert_endswith() (phytest.bio.sequence.Sequence method) assert_internal_branch_lengths() (phytest.bio.tree.Tree method) assert_is_bifurcating() (phytest.bio.tree.Tree method) assert_is_monophyletic() (phytest.bio.tree.Tree method) assert_is_rooted() (phytest.bio.tree.Tree method) assert_length() (phytest.bio.alignment.Alignment method) (phytest.bio.sequence.Sequence method) assert_longest_stretch() (phytest.bio.sequence.Sequence method) assert_longest_stretch_gaps() (phytest.bio.sequence.Sequence method) assert_longest_stretch_Ns() (phytest.bio.sequence.Sequence method)

assert_match() (phytest.bio.data.Data method) assert_no_negatives() (phytest.bio.tree.Tree method) assert_number_of_tips() (phytest.bio.tree.Tree method) assert_percent() (phytest.bio.sequence.Sequence method) assert_percent_gaps() (phytest.bio.sequence.Sequence method) assert_percent_GC() (phytest.bio.sequence.Sequence method) assert_percent_N() (phytest.bio.sequence.Sequence method) assert_range() (phytest.bio.data.Data method) assert_root_to_tip() (phytest.bio.tree.Tree method) assert_startswith() (phytest.bio.sequence.Sequence method) assert_terminal_branch_lengths() (phytest.bio.tree.Tree method) assert_tip_names() (phytest.bio.tree.Tree method) assert_tip_regex() (phytest.bio.tree.Tree method) assert_total_branch_length() (phytest.bio.tree.Tree method) assert_unique_tips() (phytest.bio.tree.Tree method) assert_valid_alphabet() (phytest.bio.sequence.Sequence method) assert_values() (phytest.bio.data.Data method) assert_width() (phytest.bio.alignment.Alignment method)

C

copy() (phytest.bio.tree.Tree method)

D

Data (class in phytest.bio.data)

P

plot_root_to_tip() (phytest.bio.tree.Tree method)

R

root_to_tip_regression() (phytest.bio.tree.Tree method)

S

Sequence (class in phytest.bio.sequence)

T

Tree (class in phytest.bio.tree)