liger object of PBMC subsample data with plotting information available

This data was generated from data "pbmc" with default parameter integration pipeline: normalize, selectGenes, scaleNotCenter, runINMF, runCluster, runUMAP. To minimize the object size distributed with the package, rawData and scaleData were removed. Genes are downsampled to the top 50 variable genes, for smaller normData and \(W\) matrix.

Usage

pbmcPlot

Format

liger object with two datasets named by "ctrl" and "stim".

Source

https://www.nature.com/articles/nbt.4042

References

Hyun Min Kang and et. al., Nature Biotechnology, 2018