LRactivity: calculate the activity for each LR pair
In liuqivandy/SpaGene: Identify spatially localized genes and colocalized gene pairs
LRactivity R Documentation
calculate the activity for each LR pair
Description
calcuate the LR activity
Usage
LRactivity(expr, location, normalize = T, knn = 8, LRpair = LRpair)
Arguments
expr
gene expression matrix, the row is the gene and the column is the spot/cell
location
location matrix, the row number of location should match the column number of expr
normalize
whether to normalize the data (default: TRUE)
knn
the number of nearest neighbours to search (default: 8)
LRpair
the ligand-receptor pair for plot
Value
a data matrix with LR activity in each location, row is LR pair, column is location.
liuqivandy/SpaGene documentation built on July 1, 2023, 6:44 a.m.
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| LRactivity | R Documentation |
calculate the activity for each LR pair
Description
calcuate the LR activity
Usage
LRactivity(expr, location, normalize = T, knn = 8, LRpair = LRpair)
Arguments
expr |
gene expression matrix, the row is the gene and the column is the spot/cell |
location |
location matrix, the row number of location should match the column number of expr |
normalize |
whether to normalize the data (default: TRUE) |
knn |
the number of nearest neighbours to search (default: 8) |
LRpair |
the ligand-receptor pair for plot |
Value
a data matrix with LR activity in each location, row is LR pair, column is location.
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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