sciduck provides a transparent framework for single cell/nuclei quality control and annotation. The package was built following anndata and scanpy to easily fit into related workflows. It provides tranparency to single cell analysis pipelines for reproducible data analysis and annotation. The Python-based implementation efficiently deals with
datasets of more than one million cells.
In the Quality Control tutorial we showcase how to perform various range and group contraints.
In the Plotting tutorial we show how to use the sciduck plotting functions to identify quality control cuttoffs.
In the Annotation Table tutorial we show how to build an annotation table for use in taxonomy development. Typically what is hosted on google sheets at the Allen Institute.
pip install sciduck