SCimilarity Tutorial Data

SCimilarity is a unifying representation of single-cell expression profiles that quantifies similarity between expression states and generalizes to represent new studies without additional training. This enables a novel cell search capability, which sifts through millions of profiles to find cells similar to a query cell state and allows researchers to quickly and systematically leverage massive public scRNA-seq atlases to learn about a cell state of interest.

This repository contains public datasets for SCimilarity tutorials, specifically:

A subsample of single-cell data from Adams, et al. Science Advances, 2020 (GSE136831) as an AnnData object in h5ad format.

Terms of GSE136831:

Used with permission. Research developed by TLC4PF and the Yale School of Medicine led by Dr. Naftali Kaminski. © 2023 Pulmonary Fibrosis Cell Atlas website and associated content. All rights reserved. Please see the project website for more information: www.IPFCellAtlas.com

In addition, please cite (https://www.science.org/doi/10.1126/sciadv.aba1983  and for a description of the website creation methodology please cite (https://doi.org/10.1152/ajplung.00451.2020).