mouse_obj: a example output of 'create_region_object '

In geneprophet/BSDMR: a region-based method for quantitating the conservation and divergence of methylation patterns between species by high order features

Description

mouse_obj <- create_region_object(mouse_met, mouse_region)

Usage

mouse_obj

Format

A list object containing the two elements:

• met: A list containing methylation region data, where each entry in the list is an L_{i} X D dimensional matrix, where L_{i} denotes the number of CpGs found in region i. The columns contain the following information:

  1. 1st column: Contains the locations of CpGs relative to centre. Note that the actual locations are scaled to the [-1,1] region.

  2. 2nd column: Contains the total number of reads at each CpG location.

  3. 3rd column: Contains the methylated reads at each CpG location.

  . Rownames of each matrix contain the actual CpG genomic coordinates as <chr>:<location>.

• anno: The annotation object.

Note: The lengths of met and anno should match.

Value

region_object

See Also

create_region_object

geneprophet/BSDMR documentation built on March 3, 2021, 5:50 a.m.