LouvainClust: Performs louvain clustering on the active assay of the given...
In califano-lab/PISCES: Protein Activity Inferecne in Single Cells
LouvainClust R Documentation
Performs louvain clustering on the active assay of the given Seurat object.
Looks for a distance matrix 'dist' in the 'misc' field of the active assay.
Description
Performs louvain clustering on the active assay of the given Seurat object.
Looks for a distance matrix 'dist' in the 'misc' field of the active assay.
Usage
LouvainClust(pisces.obj, kmin = 5, kmax = 50, kstep = 5)
Arguments
pisces.obj
A Seurat object w/ either 'dist' in the 'misc' field or w/ 'scale.data'.
kmin
Minimum number of neighbors Default of 5.
kmax
Maximum number of neibhbors Default of 50.
kstep
Step size between k values. Default of 5.
Value
Seurat object with clustering object 'louvain.clust' added to 'misc' field of active assay.
And optimal clustering set as 'pisces.cluster' label for active assay.
califano-lab/PISCES documentation built on Jan. 11, 2023, 5:34 a.m.
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| LouvainClust | R Documentation |
Performs louvain clustering on the active assay of the given Seurat object. Looks for a distance matrix 'dist' in the 'misc' field of the active assay.
Description
Performs louvain clustering on the active assay of the given Seurat object. Looks for a distance matrix 'dist' in the 'misc' field of the active assay.
Usage
LouvainClust(pisces.obj, kmin = 5, kmax = 50, kstep = 5)
Arguments
pisces.obj |
A Seurat object w/ either 'dist' in the 'misc' field or w/ 'scale.data'. |
kmin |
Minimum number of neighbors Default of 5. |
kmax |
Maximum number of neibhbors Default of 50. |
kstep |
Step size between k values. Default of 5. |
Value
Seurat object with clustering object 'louvain.clust' added to 'misc' field of active assay. And optimal clustering set as 'pisces.cluster' label for active assay.
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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