seurat_to_h5: Seurat is converted to h5 file
In JiekaiLab/RIOH5: The scRNA-seq data IO between R and Python(R version)
Description
Seurat object is converted to h5 file.
Usage
1
seurat_to_h5(seurat = NULL, h5 = NULL, assay.name = NULL, save.graphs = FALSE)
Arguments
seurat
The seurat object.
h5
The h5 file in R.
assay.name
'assay.name' is used to flag the data type. Defualt is "RNA". Available options are:
"RNA": this is the scRNA-seq data.
"spatial": this is the spatial data.
save.graphs
Default is False , determing whether to save the graph(cell-cell similarity network).
seurat graph is different from scanpy graph. Their relationship are set "distances": "knn", "connectivities": "snn" roughly.
JiekaiLab/RIOH5 documentation built on June 5, 2021, 8:37 a.m.
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Description
Seurat object is converted to h5 file.
Usage
1 | seurat_to_h5(seurat = NULL, h5 = NULL, assay.name = NULL, save.graphs = FALSE)
|
Arguments
seurat |
The seurat object. |
h5 |
The h5 file in R. |
assay.name |
'assay.name' is used to flag the data type. Defualt is "RNA". Available options are:
|
save.graphs |
Default is False , determing whether to save the graph(cell-cell similarity network). seurat graph is different from scanpy graph. Their relationship are set "distances": "knn", "connectivities": "snn" roughly. |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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