Symphony pre-built single-cell reference atlases

<p>Pre-built Symphony reference objects that can be downloaded and used to map new query datasets.</p> <p>The Symphony&nbsp;algorithm is used&nbsp;to perform reference mapping to these&nbsp;atlases.&nbsp;</p> <ul> <li>Preprint:&nbsp;<a href="https://www.biorxiv.org/content/10.1101/2020.11.18.389189v2">https://www.biorxiv.org/content/10.1101/2020.11.18.389189v2</a></li> <li>Usage:&nbsp;<a href="https://github.com/immunogenomics/symphony">https://github.com/immunogenomics/symphony</a></li> </ul> <p><strong>References available for download:</strong></p> <ol> <li>10x PBMCs Atlas (pbmcs_10x_reference.rds)</li> <li>Pancreatic&nbsp;Islet Cells Atlas (pancreas_plate-based_reference.rds)</li> <li>Fetal Liver Hematopoiesis Atlas (fetal_liver_reference_3p.rds)</li> <li>Healthy Fetal Kidney Atlas (kidney_healthy_fetal_reference.rds)</li> <li>T cell CITE-seq atlas (tbru_ref.rds)</li> <li>Cross-tissue Fibroblast Atlas (see <a href="https://sandbox.zenodo.org/record/772596#.YOqMiBNKhTY">here</a>)</li> <li>Cross-tissue Inflammatory Immune Atlas (<a href="https://sandbox.zenodo.org/record/888445#.YV9In2ZKijB">here</a>)</li> <li>Tabula Muris Senis (FACS) Atlas (TMS_facs_reference.rds)</li> </ol> <p>To read in a reference into R, one may simply execute: reference = readRDS(&#39;path/to/reference_name.rds&#39;)</p> <p>Note: To be able to map query datasets into the reference UMAP coordinates, you must also download the corresponding &#39;uwot_model&#39; file and set the reference$save_uwot_path.</p>