BandNorm

This function allows you to calculate the BandNorm normalization.

bandnorm(path = NULL, hic_df = NULL, save = TRUE, save_path = NULL)

Arguments

path

The path for all the cells in a directory. There can be sub-directories.

hic_df

If you prepare the dataset as a format of "chrom", "binA", "binB", "count", "diag", "cell", you can input it into bandnorm directly.

save

Whether to save each normalized cells. Default is TRUE. Note that if don't have large memory on your computer, and you need to use create_embedding function, it is highly recommended to save the cells because it helps lower the cost of memory in this function.

save_path

Indicate the output path for normalized cells. Only need it when "save" parameter is TRUE. Default is NULL.

Examples

data("hic_df")
bandnorm_result = bandnorm(hic_df = hic_df, save = FALSE)