LEFSE_PLOT_CLADOGRAM.PY

NAME

lefse_plot_cladogram.py - determine features of organisms, clades, taxonomic units, genes

DESCRIPTION

usage: lefse_plot_cladogram.py [-h] [--clade_sep CLADE_SEP]
[--max_lev MAX_LEV]

[--max_point_size MAX_POINT_SIZE] [--min_point_size MIN_POINT_SIZE] [--point_edge_width MARKEREDGEWIDTH] [--siblings_connector_width SIBLINGS_CONNECTOR_WIDTH] [--parents_connector_width PARENTS_CONNECTOR_WIDTH] [--radial_start_lev RADIAL_START_LEV] [--labeled_start_lev LABELED_START_LEV] [--labeled_stop_lev LABELED_STOP_LEV] [--abrv_start_lev ABRV_START_LEV] [--abrv_stop_lev ABRV_STOP_LEV] [--expand_void_lev EXPAND_VOID_LEV] [--class_legend_vis CLASS_LEGEND_VIS] [--colored_connector COLORED_CONNECTORS] [--alpha ALPHA] [--title TITLE] [--sub_clade SUB_CLADE] [--title_font_size TITLE_FONT_SIZE] [--right_space_prop R_PROP] [--left_space_prop L_PROP] [--label_font_size LABEL_FONT_SIZE] [--background_color {k,w}] [--colored_labels {0,1}] [--class_legend_font_size CLASS_LEGEND_FONT_SIZE] [--dpi DPI] [--format {png,svg,pdf}] [--all_feats ALL_FEATS] INPUT_FILE OUTPUT_FILE

Cladoplot

positional arguments:

INPUT_FILE

tab delimited input file

OUTPUT_FILE

the file for the output image

optional arguments:

-h, --help

show this help message and exit

	--clade_sep CLADE_SEP
	--max_lev MAX_LEV
	--max_point_size MAX_POINT_SIZE
	--min_point_size MIN_POINT_SIZE
	--point_edge_width MARKEREDGEWIDTH
	--siblings_connector_width SIBLINGS_CONNECTOR_WIDTH
	--parents_connector_width PARENTS_CONNECTOR_WIDTH
	--radial_start_lev RADIAL_START_LEV
	--labeled_start_lev LABELED_START_LEV
	--labeled_stop_lev LABELED_STOP_LEV
	--abrv_start_lev ABRV_START_LEV
	--abrv_stop_lev ABRV_STOP_LEV
	--expand_void_lev EXPAND_VOID_LEV
	--class_legend_vis CLASS_LEGEND_VIS
	--colored_connector COLORED_CONNECTORS
	--alpha ALPHA
	--title TITLE
	--sub_clade SUB_CLADE
	--title_font_size TITLE_FONT_SIZE
	--right_space_prop R_PROP
	--left_space_prop L_PROP
	--label_font_size LABEL_FONT_SIZE

--background_color {k,w}

set the color of the background

--colored_labels {0,1}

draw the label with class color (1) or in black (0)

	--class_legend_font_size CLASS_LEGEND_FONT_SIZE
	--dpi DPI

--format {png,svg,pdf}

the format for the output file

--all_feats ALL_FEATS

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.