expandClusters: Expands soup counts calculated at the cluster level to the...
In SoupX: Single Cell mRNA Soup eXterminator
expandClusters R Documentation
Expands soup counts calculated at the cluster level to the cell level
Description
Given a clustering of cells and soup counts calculated for each of those clusters, determines a most likely allocation of soup counts at the cell level.
Usage
expandClusters(clustSoupCnts, cellObsCnts, clusters, cellWeights, verbose = 1)
Arguments
clustSoupCnts
Matrix of genes (rows) by clusters (columns) where counts are number of soup counts for that gene/cluster combination.
cellObsCnts
Matrix of genes (rows) by cells (columns) giving the observed counts
clusters
Mapping from cells to clusters.
cellWeights
Weighting to give to each cell when distributing counts. This would usually be set to the number of expected soup counts for each cell.
verbose
Integer giving level of verbosity. 0 = silence, 1 = Basic information, 2 = Very chatty, 3 = Debug.
Value
A matrix of genes (rows) by cells (columns) giving the number of soup counts estimated for each cell. Non-integer values possible.
SoupX documentation built on Nov. 1, 2022, 5:05 p.m.
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| expandClusters | R Documentation |
Expands soup counts calculated at the cluster level to the cell level
Description
Given a clustering of cells and soup counts calculated for each of those clusters, determines a most likely allocation of soup counts at the cell level.
Usage
expandClusters(clustSoupCnts, cellObsCnts, clusters, cellWeights, verbose = 1)
Arguments
clustSoupCnts |
Matrix of genes (rows) by clusters (columns) where counts are number of soup counts for that gene/cluster combination. |
cellObsCnts |
Matrix of genes (rows) by cells (columns) giving the observed counts |
clusters |
Mapping from cells to clusters. |
cellWeights |
Weighting to give to each cell when distributing counts. This would usually be set to the number of expected soup counts for each cell. |
verbose |
Integer giving level of verbosity. 0 = silence, 1 = Basic information, 2 = Very chatty, 3 = Debug. |
Value
A matrix of genes (rows) by cells (columns) giving the number of soup counts estimated for each cell. Non-integer values possible.
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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