disj_background {exomePeak2} | R Documentation

## Find the background of the user provided modification.

### Description

Find the background of the user provided modification.

### Usage

    disj_background(
      mod_gr,
      txdb,
      background_bins = NULL,
      background_types = c("Gaussian_mixture", "m6Aseq_prior", "manual", "all"),
      control_width = 50,
      rename_mod = FALSE
    )

### Arguments

`mod_gr` | A `GRanges` object of user provided modification (names are neccessary for the index of the splitting).
`txdb` | A `TxDb` object that define the transcript modification.
`background_bins` | A Granges object for background bins.
`background_types` | A logical value, TRUE if the region of 5'UTR and long exons of the transcripts should be dropped in control region; Default TRUE.
`control_width` | A integer for the minimum width of the control region returned; default 50.
`rename_mod` | Whether to rename the returned modification sites, default = FALSE.

### Value

A `GRangesList` object. The first portion is the exons regions that is not overlapped with `annoation`.

If the resulting ranges have less number and width compared with what defined in `cut_off_num`, the exon regions of txdb will be returned as the background.

The second portion is the reconstructed provided modification with gene id mod_grated.

[Package exomePeak2 version 1.4.2 Index]