sci-CAR Mouse Kidney
sci-CAR profiles of 11k mouse kidney cells
openproblems_v1_multimodal
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Description
Single cell RNA-seq and ATAC-seq co-profiling of 11k mouse kidney cells.
Preview
An AnnData object with n_obs × n_vars = 11296 × 29013 with slots:
obsm: X_svd
layers: counts, normalized
| Name | Description | Type | Data type | Size |
|---|---|---|---|---|
| obs | ||||
cell_type | Classification of the cell type based on its characteristics and function within the tissue or organism. | vector | category | 11296 |
batch | A batch identifier. This label is very context-dependent and may be a combination of the tissue, assay, donor, etc. | vector | category | 11296 |
size_factors | The size factors created by the normalisation method, if any. | vector | float32 | 11296 |
| var | ||||
feature_name | A human-readable name for the feature, usually a gene symbol. | vector | object | 29013 |
hvg | Whether or not the feature is considered to be a 'highly variable gene' | vector | bool | 29013 |
hvg_score | A ranking of the features by hvg. | vector | float64 | 29013 |
| obsm | ||||
X_svd | The resulting SVD embedding. | densematrix | float32 | 11296 × 100 |
| layers | ||||
counts | Raw counts | sparsematrix | float32 | 11296 × 29013 |
normalized | Normalised expression values | sparsematrix | float32 | 11296 × 29013 |
| uns | ||||
dataset_description | Long description of the dataset. | atomic | str | 1 |
dataset_id | A unique identifier for the dataset. This is different from the `obs.dataset_id` field, which is the identifier for the dataset from which the cell data is derived. | atomic | str | 1 |
dataset_name | A human-readable name for the dataset. | atomic | str | 1 |
dataset_organism | The organism of the sample in the dataset. | atomic | str | 1 |
dataset_reference | Bibtex reference of the paper in which the dataset was published. | atomic | str | 1 |
dataset_summary | Short description of the dataset. | atomic | str | 1 |
dataset_url | Link to the original source of the dataset. | atomic | str | 1 |
normalization_id | Which normalization was used | atomic | str | 1 |
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