| correct {sctransform} | R Documentation |
Correct data by setting all latent factors to their median values and reversing the regression model
correct(x, data = "y", cell_attr = x$cell_attr, do_round = TRUE, do_pos = TRUE, show_progress = TRUE)
x |
A list that provides model parameters and optionally meta data; use output of vst function |
data |
The name of the entry in x that holds the data |
cell_attr |
Provide cell meta data holding latent data info |
do_round |
Round the result to integers |
do_pos |
Set negative values in the result to zero |
show_progress |
Whether to print progress bar |
Corrected data as UMI counts
vst_out <- vst(pbmc, return_cell_attr = TRUE) umi_corrected <- correct(vst_out)