Slidescans: p161

This repository constains all the slidescans associated with slide block p161 for the project:

A quantitative analysis of the interplay of environment, neighborhood, and cell state in 3D spheroids

    Vito RT Zanotelli
    Matthias Leutenegger
    Xiao‐Kang Lun
    Fanny Georgi
    Natalie de Souza
    Bernd Bodenmiller

Mol Syst Biol. (2020) 16: e9798
https://doi.org/10.15252/msb.20209798

Please cite this article if you re-use any of the data or code.

Each acquisition follows the naming scheme:

"{operator}_{date}_{slideblock}_{slidenr}{suffix}"

e.g. v.zanotelli_20190509_p161_025.czi

Each acquisition has 3 files:

- suffix='.czi': main slidescan

- suffix='_pt1.czi': slide label scan

- suffix='_pt2.csi': coarse slide overview scan

Each 'main slidescan' is usually composed of multiple 'Scenes', corresponding to regions scanned with high resolution. The convention is that each scene corresponds to unique cut that is independently stained and processed. Note that scene numbering does not necessarily follows a logical order.

The slidescans were acquired using an AxioScan A1