intermediateMat: Find the clustering matrix that we would get if we stopped...

In HectorRDB/Dune: Improving replicability in single-cell RNA-Seq cell type discovery

Description

Find the clustering matrix that we would get if we stopped the ARI merging early

Usage

intermediateMat(merger, p = 1, average_n = NULL, n_steps = NULL)

Arguments

merger	the result from having run Dune on the dataset
p	A value between 0 and 1. We stop when the metric used for merging has improved by p of the final total improvement. Default to 1 (i.e running the full merging).
average_n	Alternatively, you can specify the average number of clusters you want to have.
n_steps	Finally, you can specify the number of merging steps to do before stopping.

Details

If more than one of p,average_n and n_steps is specified, then the order of preference is n_steps, then average_n then p.

Value

A data.frame with the same dimensions as the currentMat of the merger argument, plus one column with cell names, related to the rownames of the original input

Examples

data("clusMat", package = "Dune")
merger <- Dune(clusMat = clusMat)
head(intermediateMat(merger, n_steps = 1))

HectorRDB/Dune documentation built on Dec. 18, 2020, 8:08 p.m.