table of contents
- bullseye 1.0.8-3
PLOT_FEATURES(1) | User Commands | PLOT_FEATURES(1) |
NAME¶
plot_features - determine features of organisms, clades, taxonomic units, genes
SYNOPSIS¶
plot_features [-h] [--width WIDTH] [--height HEIGHT] [--top TOP] [--bot BOT] [--title_font_size TITLE_FONT_SIZE] [--class_font_size CLASS_FONT_SIZE] [--class_label_pos {up,down}] [--subcl_mean {y,n}] [--subcl_median {y,n}] [--font_size FONT_SIZE] [-n flt] [--format {png,pdf,svg}] [-f {all,diff,one}] [--feature_name FEATURE_NAME] [--feature_num FEATURE_NUM] [--archive {zip,none}] [--background_color {k,w}] [--dpi DPI] INPUT_FILE INPUT_FILE OUTPUT_FILE
DESCRIPTION¶
Cladoplot
OPTIONS¶
positional arguments:¶
- INPUT_FILE
- dataset files
- INPUT_FILE
- LEfSe output file
- OUTPUT_FILE
- the file for the output (the zip file if an archive is required, the output directory otherwise)
optional arguments:¶
- -h, --help
- show this help message and exit
--width WIDTH
--height HEIGHT
- --top TOP
- set maximum y limit (-1.0 means automatic limit)
- --bot BOT
- set minimum y limit (default 0.0, -1.0 means automatic limit)
--title_font_size TITLE_FONT_SIZE
--class_font_size CLASS_FONT_SIZE
--class_label_pos {up,down}
--subcl_mean {y,n}
--subcl_median {y,n}
--font_size FONT_SIZE
- -n flt
- unused
- --format {png,pdf,svg}
- the format for the output file
- -f {all,diff,one}
- whether to plot all features (all), only those differentially abundant according to LEfSe or only one (the one given with --feature_name)
- --feature_name FEATURE_NAME
- The name of the feature to plot (levels separated by .)
- --feature_num FEATURE_NUM
- The number of the feature to plot
--archive {zip,none}
- --background_color {k,w}
- set the color of the background
--dpi DPI
AUTHOR¶
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.
September 2019 | plot_features 1.0.8 |