signal_at_rDNA: Signal flanking rDNA

In hochwagenlab/hwglabr: Collection of R functions used in the Hochwagen Lab

Signal flanking rDNA

Description

This function allows you to pull out the ChIP signal flanking the rDNA region on chromosome 12. The function takes as input the wiggle data as a list of 16 chromosomes. (output of readall_tab).

Usage

signal_at_rDNA(inputData, saveFile = FALSE)

Arguments

inputData	As a list of the 16 chr wiggle data (output of readall_tab). No default.
saveFile	Boolean indicating whether output should be written to a .txt file (in current working directory). If saveFile = FALSE, output is returned to screen or an R object (if assigned). Defaults to FALSE.

Value

A local data frame with four columns:

1. chr Chromosome number

2. position Nucleotide coordinate (in normalized total length of 1 kb)

3. signal ChIP-seq signal at each position (1 to 1000)

4. gene Systematic gene name

Examples

## Not run: 
signal_at_rDNA(WT)

signal_at_rDNA(WT, saveFile = TRUE)

## End(Not run)

hochwagenlab/hwglabr documentation built on Feb. 25, 2025, 5:41 a.m.