build.designmatrix.regions: Constructs a design matrix for running CSIDE across a set of...
In dmcable/RCTD: SpatialeXpressionR: Cell type identification and cell type-specific differential expression in spatial transcriptomics
build.designmatrix.regions R Documentation
Constructs a design matrix for running CSIDE across a set of regions
Description
The design matrix contains for each region a column of 0s and 1s representing membership in that region.
Usage
build.designmatrix.regions(myRCTD, region_list)
Arguments
myRCTD
an RCTD object with annotated cell types e.g. from the run.RCTD function.
region_list
a list of character vectors, where each vector contains pixel names, or barcodes, for a single region. These pixel names
should be a subset of the pixels in the SpatialRNA object
Value
A design matrix containing the covariates for running CSIDE. The rownames represent pixel names and
are a subset of the pixels in the SpatialRNA object. The columns each represent a covariate for
explaining differential expression.
dmcable/RCTD documentation built on Feb. 24, 2024, 11:03 p.m.
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| build.designmatrix.regions | R Documentation |
Constructs a design matrix for running CSIDE across a set of regions
Description
The design matrix contains for each region a column of 0s and 1s representing membership in that region.
Usage
build.designmatrix.regions(myRCTD, region_list)
Arguments
myRCTD |
an |
region_list |
a list of |
Value
A design matrix containing the covariates for running CSIDE. The rownames represent pixel names and
are a subset of the pixels in the SpatialRNA object. The columns each represent a covariate for
explaining differential expression.
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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