Package index • harmony

All functions

RunHarmony(): Generic function that runs the harmony algorithm on single-cell genomics cell embeddings.
RunHarmony(<Seurat>): Applies harmony on a Seurat object cell embedding.
RunHarmony(<SingleCellExperiment>): Applies harmony on PCA cell embeddings of a SingleCellExperiment.
RunHarmony(<default>): This is the primary harmony interface.
cell_lines: List of metadata table and scaled PCs matrix
cell_lines_small: Same as cell_lines but smaller (300 cells).
-package harmony: Harmony: fast, accurate, and robust single cell integration.
harmony_options(): Set advanced parameters for RunHarmony
pbmc.ctrl: Gene expression data of control PBMC from Kang et al. 2017. This contains a sample of 1000 cells from that condition and is used for the Seurat Vignette.
pbmc.stim: Gene expression data of stimulated PBMC from Kang et al. 2017. This contains a sample of 1000 cells from that condition and is used for the Seurat Vignette.