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harmony (version 1.0.1)

Fast, Sensitive, and Accurate Integration of Single Cell Data

Description

Implementation of the Harmony algorithm for single cell integration, described in Korsunsky et al . Package includes a standalone Harmony function and interfaces to external frameworks.

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Version

Install

install.packages('harmony')

Monthly Downloads

9,481

Version

1.0.1

License

GPL-3

Maintainer

Ilya Korsunsky

Last Published

September 20th, 2023

Functions in harmony (1.0.1)

RunHarmony

Run harmony algorithm generic function
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.
RunHarmony.default

Main Harmony interface
harmony

Harmony: fast, accurate, and robust single cell integration.
harmony_options

Set advanced options for RunHarmony
moe_ridge_get_betas

Get beta Utility
%>%

Pipe operator
cell_lines_small

Same as cell_lines but smaller (300 cells).
cell_lines

List of metadata table and scaled PCs matrix
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.