# Fast, Sensitive, and Accurate Integration of Single Cell Data

## Documentation for package ‘harmony’ version 1.0

- DESCRIPTION file.
- Package NEWS.

## Help Pages

harmony-package | Harmony: fast, accurate, and robust single cell integration.
cell_lines | List of metadata table and scaled PCs matrix
cell_lines_small | Same as cell_lines but smaller (300 cells).
cell_lines_small_sce | Same as cell_lines_small but as SingleCellExperiment object. Expression matrices filled in with dummy values.
cell_lines_small_seurat_v2 | Same as cell_lines_small but as Seurat Version 2 object. Expression matrices filled in with dummy values.
cell_lines_small_seurat_v3 | Same as cell_lines_small but as Seurat Version 3 object. Expression matrices filled in with dummy values.
harmony | Harmony: fast, accurate, and robust single cell integration.
HarmonyMatrix | Main Harmony interface
RunHarmony | Harmony single cell integration
RunHarmony.Seurat | Harmony single cell integration
RunHarmony.seurat | Harmony single cell integration
RunHarmony.SingleCellExperiment | Harmony single cell integration