Datasets for ShinyCell2 Example Applications

Datasets for ShinyCell2 Example Applications, which include: spatial_brain.rds: Example spatial transcriptomics dataset of sagital mouse brain slices generated using the 10x Visium v1 chemistry, processed using the Seurat spatial pipeline (https://satijalab.org/seurat/articles/spatial_vignette) multimodal_pbmc.rds: Example CITE-seq dataset of PBMC reference containing 162,000 PBMC cells measured with 228 antibodies (https://satijalab.org/seurat/articles/multimodal_reference_mapping.html) ArchR-ProjHeme.tar.gz: Example scATAC-seq dataset of bone marrow and peripheral blood mononuclear cells, which is used as the tutorial dataset for the ArchR pipeline (https://www.archrproject.com/articles/Articles/tutorial.html). As ArchR objects are stored in a directory containing many files, the entire folder is tarred and compressed here. signac_pbmc.rds: Example scATAC-seq dataset of PBMC provided by 10x Genomics, which is used as the tutorial dataset for the signac pipeline (https://stuartlab.org/signac/articles/pbmc_vignette.html). Signac objects store the full list of all unique fragments across all single cells in a separate fragment file, uploaded as signac_pbmc_fragments.tsv.gz here