View source: R/perform.sc3.reduction.cluster.R
perform.sc3.reduction.cluster | R Documentation |
Performs SC3 clustering on defined method-assays and supplied reductions. SC3 is designed to function on count matrices, reduction may not always work well.
perform.sc3.reduction.cluster( object, assay, reduction, dims, cluster.df.name.suffix = "", ks, n.core = 3 )
object |
IBRAP S4 class object |
assay |
Character. String containing indicating which assay to use |
reduction |
Character. String defining which reduction to supply to the clustering algorithm. |
dims |
Numerical. How many dimensions of the reduciton should be supplied, NULL equates to all. |
ks |
Numerical range. Number of clusters to identify, this can be a range, i.e. 5:10. |
n.core |
Numerical. How many cores should be used to run SC3. Default = 3 |
assignment.df.name |
Character. What to call the df contained in clusters. |
Cluster assignments using the list of resolutions provided contained within cluster_assignments under assignment.df.name
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