Index

Symbols

--alpha <float> command line option --colour_list command line option --colour_list <hex string> <hex string> ... command line option, [1] --cpm <int> command line option --cutoff <int> command line option --directory <file path> command line option, [1] --first_n <int> command line option --group <hex_colour (optional)> <sample_one> <sample_two> ... command line option --group <sample name> <sample name> ... command line option, [1] --group <str> command line option --ignore_names command line option, [1], [2] --interval <float> command line option --itol command line option, [1] --keep_zeros command line option, [1] --kmer <int> command line option --log-scale command line option, [1]

--memory <int> command line option --n_processes <int> command line option --out <str> command line option, [1], [2], [3] --paired command line option --phyla command line option, [1], [2] --phylogeny <file path> command line option --taxonomy command line option --x <float> command line option -d <file path> command line option, [1] -k <int> command line option -m <int> command line option -n <int> command line option -o <str> command line option, [1], [2], [3] -p <file path> command line option -t <float> command line option -x <float> command line option

_

__init__() (in module expam.tree.location.Location)

C

command line option --alpha <float> --colour_list --colour_list <hex string> <hex string> ..., [1] --cpm <int> --cutoff <int> --directory <file path>, [1] --first_n <int> --group <hex_colour (optional)> <sample_one> <sample_two> ... --group <sample name> <sample name> ..., [1] --group <str> --ignore_names, [1], [2] --interval <float> --itol, [1] --keep_zeros, [1] --kmer <int> --log-scale, [1] --memory <int> --n_processes <int> --out <str>, [1], [2], [3] --paired --phyla, [1], [2] --phylogeny <file path> --taxonomy --x <float> -d <file path>, [1] -k <int> -m <int> -n <int> -o <str>, [1], [2], [3] -p <file path> -t <float> -x <float>

coord() (in module expam.tree.tree.Index)

E

expam.tree module

F

from_newick() (in module expam.tree.tree.Index)

G

get_child_leaves() (in module expam.tree.tree.Index)

get_child_nodes() (in module expam.tree.tree.Index)

I

Index (class in expam.tree.tree)

L

load_newick() (in module expam.tree.tree.Index)

Location (class in expam.tree.location)

M

module expam.tree

R

resolve_polytomies() (in module expam.tree.tree.Index)

T

to_newick() (in module expam.tree.tree.Index)

Y

yield_child_nodes() (in module expam.tree.tree.Index)

yield_leaves() (in module expam.tree.tree.Index)