Reproducibility repo accompanying Mayr et al. "Integrative analysis of cell state changes in lung fibrosis with peripheral protein biomarkers" in EMBO Molecular Medicine.
Repo for the preprint at medRxiv accompanying Mayr et al. "Integrated single cell analysis of human lung fibrosis resolves cellular origins of predictive protein signatures in body fluids" can be found in the folder medRxiv.
Download all data from here and subsequently uncompress the files.
The two anndata objects have following layers of information
- munich_dataset.5had:
raw counts in .layers["counts"], normalized/log-transformed counts in .raw.X and scaled/corrected counts in .X - integrated_human_dataset.h5ad: contains raw counts of all integrated data sets in .X