RNAMagnetSignaling: Runs RNAMagnet for identifying signaling interactions between...
In veltenlab/rnamagnet: Infers physical and signaling interactions from single-cell RNA-seq data
Description
Usage
Arguments
Value
Description
RNAMagnet comes in two flavors: RNAMagnetSignaling and RNAMagnetAnchors. This function is meant to identify, for each cell type from a seurat object, potential signaling interactions with other cell types.
Usage
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RNAMagnetSignaling(seurat, neighborhood.distance = NULL,
neighborhood.gradient = NULL, .k = 10, .x0 = 0.5,
.minExpression = 10, .version = "latest",
.cellularCompartment = c("Secreted", "Both"),
.manualAnnotation = "Correct")
Arguments
seurat
An object of class seurat containing a valid clustering and t-SNE information. For information on how to create such an object, see https://satijalab.org/seurat/get_started.html
...
For explanation of all further parameters, see RNAMagnetBase.
Value
Returns an objects of class rnamagnet. PlotSignalingNetwork or getRNAMagnetGenes can be used for further analyses.
veltenlab/rnamagnet documentation built on June 24, 2021, 6:19 p.m.
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Description Usage Arguments Value
Description
RNAMagnet comes in two flavors: RNAMagnetSignaling and RNAMagnetAnchors. This function is meant to identify, for each cell type from a seurat object, potential signaling interactions with other cell types.
Usage
1 2 3 4 5 | RNAMagnetSignaling(seurat, neighborhood.distance = NULL,
neighborhood.gradient = NULL, .k = 10, .x0 = 0.5,
.minExpression = 10, .version = "latest",
.cellularCompartment = c("Secreted", "Both"),
.manualAnnotation = "Correct")
|
Arguments
seurat |
An object of class |
... |
For explanation of all further parameters, see |
Value
Returns an objects of class rnamagnet. PlotSignalingNetwork or getRNAMagnetGenes can be used for further analyses.
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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