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.\" DO NOT MODIFY THIS FILE! It was generated by help2man 1.48.1.
.TH LEFSE_PLOT_CLADOGRAM.PY "1" "September 2021" "lefse_plot_cladogram.py 1.1.2" "User Commands"
.SH NAME
lefse_plot_cladogram.py \- determine features of organisms, clades, taxonomic units, genes
.SH DESCRIPTION
usage: lefse_plot_cladogram.py [\-h] [\-\-clade_sep CLADE_SEP]
.TP
[\-\-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
.PP
Cladoplot
.SS "positional arguments:"
.TP
INPUT_FILE
tab delimited input file
.TP
OUTPUT_FILE
the file for the output image
.SS "optional arguments:"
.TP
\fB\-h\fR, \fB\-\-help\fR
show this help message and exit
.HP
\fB\-\-clade_sep\fR CLADE_SEP
.HP
\fB\-\-max_lev\fR MAX_LEV
.HP
\fB\-\-max_point_size\fR MAX_POINT_SIZE
.HP
\fB\-\-min_point_size\fR MIN_POINT_SIZE
.HP
\fB\-\-point_edge_width\fR MARKEREDGEWIDTH
.HP
\fB\-\-siblings_connector_width\fR SIBLINGS_CONNECTOR_WIDTH
.HP
\fB\-\-parents_connector_width\fR PARENTS_CONNECTOR_WIDTH
.HP
\fB\-\-radial_start_lev\fR RADIAL_START_LEV
.HP
\fB\-\-labeled_start_lev\fR LABELED_START_LEV
.HP
\fB\-\-labeled_stop_lev\fR LABELED_STOP_LEV
.HP
\fB\-\-abrv_start_lev\fR ABRV_START_LEV
.HP
\fB\-\-abrv_stop_lev\fR ABRV_STOP_LEV
.HP
\fB\-\-expand_void_lev\fR EXPAND_VOID_LEV
.HP
\fB\-\-class_legend_vis\fR CLASS_LEGEND_VIS
.HP
\fB\-\-colored_connector\fR COLORED_CONNECTORS
.HP
\fB\-\-alpha\fR ALPHA
.HP
\fB\-\-title\fR TITLE
.HP
\fB\-\-sub_clade\fR SUB_CLADE
.HP
\fB\-\-title_font_size\fR TITLE_FONT_SIZE
.HP
\fB\-\-right_space_prop\fR R_PROP
.HP
\fB\-\-left_space_prop\fR L_PROP
.HP
\fB\-\-label_font_size\fR LABEL_FONT_SIZE
.TP
\fB\-\-background_color\fR {k,w}
set the color of the background
.TP
\fB\-\-colored_labels\fR {0,1}
draw the label with class color (1) or in black (0)
.HP
\fB\-\-class_legend_font_size\fR CLASS_LEGEND_FONT_SIZE
.HP
\fB\-\-dpi\fR DPI
.TP
\fB\-\-format\fR {png,svg,pdf}
the format for the output file
.HP
\fB\-\-all_feats\fR ALL_FEATS
.SH AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.
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