bandnorm_juicer: Juicer .hic version of BandNorm

In sshen82/BandNorm: BandNorm Method for single-cell Hi-C

Juicer .hic version of BandNorm

Description

This function allows you to calculate the BandNorm normalization using the inputs that are Juicer .hic format, and the output won't be different from the original version.

Usage

bandnorm_juicer(path = NULL, resolution, chroms, save = TRUE, save_path = NULL)

Arguments

path	The path for all the cells in a directory. There can be sub-directories.
resolution	Specify the resolution from the hic file."
chroms	Specify the chromosomes to use, the format is a string like "1". If the input is "all", it will include all the intra-chromosomal bin pairs. This does not allow inputting chrM and chrY currently.
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

# We will have a thorough example for this part!

sshen82/BandNorm documentation built on June 1, 2025, 6:25 p.m.