besca standard pipeline

Besca standard worklow offers a standardized series of steps from raw-data to filtered one in order to start the annotation processes.

Besca is distributed with such workflow available as a notebook: https://github.com/bedapub/besca/blob/master/workbooks/standard_workflow_besca2.ipynb

The differents individuals steps are described in the tutorial: data processing

And different examples are available in the publication results repository:

PBMC3K standard workflow

Lee 2020 Intestine standard workflow

Granja 2019 hematopoietic standard workflow