Preprocessing: pp

The preprocessing module dotools_py.pp compiles all the basic quality control steps for analysing sc/snRNA-seq with different implementations building on packages from the scverse ecosystem

sc/snRNA Processing

pp.run_cellbender(cellranger_path, output_path)	Run cellbender to remove ambient RNA.
pp.importer_py(paths, ids[, metadata, ...])	Quality control analysis for sc/snRNA.

Normalisation

pp.sctransform_normalise(adata[, batch_key, ...])

Normalisation based on SCTransform.