aligned
aligned.a
integer()
lists
lists.change()
lists.extend()
dump()
load()
path()
Command
Command.help
Command.output()
Command.subparser()
CommandMeta
add_align_method_option()
add_cognate_identifier_option()
add_format_option()
add_method_option()
add_mode_option()
add_option()
add_shared_args()
add_strings_option()
add_tree_calc_option()
alignments
alignments.subparser()
get_parser()
help
help.subparser()
lexstat
lexstat.subparser()
main()
multiple
multiple.subparser()
pairwise
pairwise.subparser()
profile
profile.subparser()
settings
settings.subparser()
wordlist
wordlist.subparser()
Config
CustomFilter
CustomFilter.filter()
Logging
debug()
deprecated()
error()
file_written()
get_level()
get_logger()
info()
missing_module()
warning()
rc()
TemporaryPath
TextFile
as_string()
charstring()
combinations2()
data_path()
dotjoin()
identity()
join()
lines_to_text()
lingpy_path()
multicombinations2()
nexus_slug()
random_choices()
read_config_file()
read_text_file()
setdefaults()
tabjoin()
write_text_file()