scanpy.settings

class scanpy.settings

Bases: object

Settings for scanpy.

Attributes

N_PCS	Default number of principal components to use.
autosave	Automatically save figures in figdir (default False).
autoshow	Automatically show figures if autosave == False (default True).
cache_compression	Compression for sc.read(..., cache=True) (default 'lzf').
cachedir	Directory for cache files (default './cache/').
categories_to_ignore	Categories that are omitted in plotting etc.
datasetdir	Directory for example datasets (default './data/').
figdir	Directory for saving figures (default './figures/').
file_format_data	File format for saving AnnData objects.
file_format_figs	File format for saving figures.
logfile	The open file to write logs to.
logpath	The file path logfile was set to.
max_memory	Maximum memory usage in Gigabyte.
n_jobs	Default number of jobs/ CPUs to use for parallel computing.
plot_suffix	Global suffix that is appended to figure filenames.
verbosity	Verbosity level (default Verbosity.warning).
writedir	Directory where the function scanpy.write writes to by default.

Methods

set_figure_params(**kwargs)