Harmonize the expression values for a defined batch variable (batch_var).
Usage
harmonize_intensities(fcd, batch_var, seed = 91)
Arguments
- fcd
flow cytometry dataset.
- batch_var
vector of column names from fcd$anno$cell_anno to use for correcting the data.
- seed
A seed is set for reproducibility.
Value
The function returns a fcd with a harmonized expression data frame based on HarmonyMatrix. The harmonized expression data frame is saved in fcd$expr$norm.
Details
harmonize_intensities
See [Korunsky et al., 2019](https://doi.org/10.1038/s41592-019-0619-0) for more details on the Harmony algorithm.