pbmcPlot {rliger}

liger object of PBMC subsample data with plotting information available

Description

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