scan_methylation_specificity {spiky}R Documentation

tabulate methylation specificity for multiple spike-in BAM/CRAM files

Description

Methylation specificity is here defined as methylated_spike_covg/spike_covg

Usage

scan_methylation_specificity(files, spike, sep = "_")

Arguments

files

a vector of BAM/CRAM file names

spike

a spike-in database

sep

the separator for spike-in contig names ("_")

Value

   a matrix with columns "mean" and "median"

Examples

data(spike) 
library(GenomicRanges)
sb <- system.file("extdata", "example.spike.bam", package="spiky", 
                  mustWork=TRUE)
scan_methylation_specificity(sb, spike=spike)


[Package spiky version 0.99.999 Index]