addCombinedDims | R Documentation |
This function will combine two or more modalities dimensionality reductions into a single reduction.
addCombinedDims(
ArchRProj = NULL,
name = "CombinedDims",
reducedDims = NULL,
dimWeights = NULL,
dimsToUse = NULL,
scaleDims = NULL,
corCutOff = 0.75
)
ArchRProj |
An |
name |
The name for the combinedDims to be stored as. |
reducedDims |
The name of the |
dimWeights |
A vector of weights to be used to weight each dimensionality reduction when combining. |
dimsToUse |
A vector containing the dimensions from the |
scaleDims |
A boolean value that indicates whether to z-score the reduced dimensions for each cell. This is useful for minimizing
the contribution of strong biases (dominating early PCs) and lowly abundant populations. However, this may lead to stronger sample-specific
biases since it is over-weighting latent PCs. If set to |
corCutOff |
A numeric cutoff for the correlation of each dimension to the sequencing depth. If the dimension has a correlation to
sequencing depth that is greater than the |
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