makeOffByOneAdjMat: Generating adjancy matrix for neighboring cell states.
In Wancen/airpart: Differential cell-type-specific allelic imbalance
makeOffByOneAdjMat R Documentation
Generating adjancy matrix for neighboring cell states.
Description
To use the Graph-Guided Fused Lasso penalty to only regularize the differences
of coefficients of neighboring areas, suitable for time/spatial analysis.
The adjacency matrix corresponding to the graph needs to be provided.
The elements of this matrix are zero when two levels are not connected, and one when they are adjacent.
Usage
makeOffByOneAdjMat(nct)
Arguments
nct
the number of cell types/states
Details
If manually input the adjacency matrix, this matrix has to be symmetric and the names of
the cell states should be given as row and column names.
Examples
sce <- makeSimulatedData()
nct <- nlevels(sce$x)
adjmatrix <- makeOffByOneAdjMat(nct)
colnames(adjmatrix) <- rownames(adjmatrix) <- levels(sce$x)
Wancen/airpart documentation built on March 12, 2023, 11:53 a.m.
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| makeOffByOneAdjMat | R Documentation |
Generating adjancy matrix for neighboring cell states.
Description
To use the Graph-Guided Fused Lasso penalty to only regularize the differences of coefficients of neighboring areas, suitable for time/spatial analysis. The adjacency matrix corresponding to the graph needs to be provided. The elements of this matrix are zero when two levels are not connected, and one when they are adjacent.
Usage
makeOffByOneAdjMat(nct)
Arguments
nct |
the number of cell types/states |
Details
If manually input the adjacency matrix, this matrix has to be symmetric and the names of the cell states should be given as row and column names.
Examples
sce <- makeSimulatedData() nct <- nlevels(sce$x) adjmatrix <- makeOffByOneAdjMat(nct) colnames(adjmatrix) <- rownames(adjmatrix) <- levels(sce$x)
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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