build.designmatrix.nonparam: Constructs a design matrix for running CSIDE...
In dmcable/RCTD: SpatialeXpressionR: Cell type identification and cell type-specific differential expression in spatial transcriptomics
build.designmatrix.nonparam R Documentation
Constructs a design matrix for running CSIDE nonparametrically
Description
The design matrix contains thin plate spline basis functions spanning the space of smooth functions.
Usage
build.designmatrix.nonparam(myRCTD, barcodes = NULL, df = 15)
Arguments
myRCTD
an RCTD object with annotated cell types e.g. from the run.RCTD function.
barcodes
(default NULL) the barcodes, or pixel names, of the SpatialRNA object to be used when creating the design matrix.
df
(default 15) the degrees of freedom, or number of basis functions to be used in the design matrix
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.
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.
| build.designmatrix.nonparam | R Documentation |
Constructs a design matrix for running CSIDE nonparametrically
Description
The design matrix contains thin plate spline basis functions spanning the space of smooth functions.
Usage
build.designmatrix.nonparam(myRCTD, barcodes = NULL, df = 15)
Arguments
myRCTD |
an |
barcodes |
(default NULL) the barcodes, or pixel names, of the |
df |
(default 15) the degrees of freedom, or number of basis functions to be used in the design matrix |
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.