Quality-control reports for datasets in the Consensus Pituitary Atlas

This is an extensive supplementary document including quality-control for all final datasets in the Consensus Pituitary Atlas.

Legends:

RNA datasets:

-Violin plot of QC metrics

-Knee plot of barcodes

-UMAP with initial CellAssign cell types

-Bar plot of CellAssign cell type frequencies

-Dot plot of pituitary markers before ambient RNA removal

-Dot plot of pituitary markers after ambient RNA removal.

Datasets from Rebboah et al. include hypothalamus cells at this stage, therefore cell typing and UMAP looks noisy. Later these are filtered and corrected - see final datasets on epitome-atlas.com

ATAC datasets:

-Violin plot of QC metrics

-UMAP of log number of fragments

-UMAP of doublet probability (Scrublet)

-UMAP of transcription start site enrichment (TSSE)