pyani plot
¶
The plot
subcommand will plot the results of an ANI analysis, specified by run_id
, contained within a local SQLite3 database, located at dbpath
. Plot files will be written to the outdir
directory.
usage: pyani plot [-h] [-l LOGFILE] [-v] [--debug] [--disable_tqdm] [--version]
[--citation] -o OUTDIR --run_ids RUN_ID [RUN_ID ...]
[--dbpath DBPATH] [--formats FORMAT [FORMAT ...]]
[--method METHOD] [--workers WORKERS]
Flagged arguments¶
--dbpath DBPATH
- Path to the location of the local
pyani
database to be used. Default:.pyani/pyanidb
--disable_tqdm
- Disable the
tqdm
progress bar while the plotting process runs. This is useful when testing to avoid aesthetic problems with test output. --formats FORMAT [FORMAT ...]
- Graphics output format(s); more than one can be specified. Valid options are: (pdf/png/svg/jpg). (default: png)
-l LOGFILE, --logfile LOGFILE
- Provide the location
LOGFILE
to which a logfile of the plotting process will be written. --method METHOD
- Graphics method to use for plotting; options (seaborn, mpl, plotly). (default: seaborn)
-o OUTDIR, --o outdir OUTDIR
- Path to a directory where comparison plot files will be written.
--run_ids RUN_ID [RUN_ID ...]
- Unique database ID of the runs to be plotted.