Adding Datasets

How to add single-cell datasets.

To add single-cell datasets:

💡

💡

Supported Cell Ranger file uploads:
- raw_feature_bc_matrix.h5 or
- *matrix.mtx(.gz), *barcodes.tsv(.gz), and *genes|features.tsv(.gz)

💡

Supported R file uploads:
- *.qs or *.rds
- SingleCellExperiment or Seurat objects

Seurat object specifics:

Idents(scdata):
- used as clusters
levels(Idents(scdata)):
- used as cluster annotation
scdata$sample or scdata$orig.ident:
- used as sample identity
- treated as integrated if > 1 unique values
umap or tSNE reduction:
- used for scatterplots
harmony or PCA reduction:
- used as corrected reduction for integrated datasets
var.features slot:
- used as highly variable genes