7  plot-run

The plot-run subcommand generates heatmaps, distribution plots, and tabular output from an ANI analysis for a specified --run_id, using data stored in a local SQLite3 database. All plots, including formats such as JPG, PDF, PNG and SVGZ, as well as the tabular data, will be saved in the outdir directory.

Important

The output directory must already exist. The heatmap files will be named <method>_<property>.<extension> and any pre-existing files will be overwritten.

pyani-plus plot-run Usage

pyani-plus plot-run [OPTIONS]

7.1 Options

--database: Path to pyANI-plus SQLite3 database. (FILE) [REQUIRED]

--outdir: Output directory. (DIRECTORY) [REQUIRED]

--run-id: Which run from the database. [Defaults to latest.] (INTEGER)

--label: How to label the genomes. [Default: stem.] (md5|filename|stem)

--help, -h: Display usage information for pyani-plus plot-run and exit.