getCombinedDataSet: Initialize an object of class 'CombinedDataSet'
In JuanXie19/TCRlineageClust:
Description
Usage
Arguments
Details
Description
Construct a CombinedDataSet object with Seurat clustering results and clonotype information . Additional helper methods
for manipulating CombinedDatSet objects are also described below.
Usage
1
getCombinedDataSet(TCR, seurat, ...)
Arguments
seurat
An integrated Seurat object. The object must contain clustering results and saved as 'clusters', and must have cell barcodes saved as 'cell.id'
scTCRseq
The preprocessed scTCR-seq data. See details
Details
The input scTCR-seq needs to be a dataframe, and alpha chain and beta chain need to be paired. If you have multiple sets of scTCR-seq from more than one sample, the data needs to be combined into one.
The seurat object must contain clustering results and saved as 'clusters', contain cell barcodes saved as 'cell.id' and also need to have UMAP coordinates for cells.
JuanXie19/TCRlineageClust documentation built on Feb. 26, 2022, 12:33 a.m.
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Description Usage Arguments Details
Description
Construct a CombinedDataSet object with Seurat clustering results and clonotype information . Additional helper methods
for manipulating CombinedDatSet objects are also described below.
Usage
1 | getCombinedDataSet(TCR, seurat, ...)
|
Arguments
seurat |
An integrated Seurat object. The object must contain clustering results and saved as 'clusters', and must have cell barcodes saved as 'cell.id' |
scTCRseq |
The preprocessed scTCR-seq data. See details |
Details
The input scTCR-seq needs to be a dataframe, and alpha chain and beta chain need to be paired. If you have multiple sets of scTCR-seq from more than one sample, the data needs to be combined into one.
The seurat object must contain clustering results and saved as 'clusters', contain cell barcodes saved as 'cell.id' and also need to have UMAP coordinates for cells.
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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