AssignSCcords: The function to assign the spatial location information for...
In YingMa0107/CARD: Spatially Informed Cell Type Deconvolution for Spatial Transcriptomics
View source: R/CARD.SCMapping.R
AssignSCcords R Documentation
The function to assign the spatial location information for each single cell
Description
The function to assign the spatial location information for each single cell
Usage
AssignSCcords(MappintSpotCellCor, Cords_new, numCell, sc_eset, ct.varname)
Arguments
MappintSpotCellCor
a mapped correlation matrix indicating the relashionship between each measured spatial location and the single cell in the scRNAseq reference
Cords_new
output from the function getHighresCords
numCell
a numeric value indicating the number of single cells in each measured location, we suggest 20 for ST technology, 7 for 10x Viisum and 2 for Slide-seq
sc_eset
a single cell experiment object stored in CARD object
ct.varname
character, the name of the column in metaData that specifies the cell type annotation information, stroed in CARD object
Value
Return the assigned spatial location information for the mapped single cell
YingMa0107/CARD documentation built on Feb. 14, 2024, 12:23 p.m.
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View source: R/CARD.SCMapping.R
| AssignSCcords | R Documentation |
The function to assign the spatial location information for each single cell
Description
The function to assign the spatial location information for each single cell
Usage
AssignSCcords(MappintSpotCellCor, Cords_new, numCell, sc_eset, ct.varname)
Arguments
MappintSpotCellCor |
a mapped correlation matrix indicating the relashionship between each measured spatial location and the single cell in the scRNAseq reference |
Cords_new |
output from the function getHighresCords |
numCell |
a numeric value indicating the number of single cells in each measured location, we suggest 20 for ST technology, 7 for 10x Viisum and 2 for Slide-seq |
sc_eset |
a single cell experiment object stored in CARD object |
ct.varname |
character, the name of the column in metaData that specifies the cell type annotation information, stroed in CARD object |
Value
Return the assigned spatial location information for the mapped single cell
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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