Parameter-methods {exomePeak2}

R Documentation

Method Parameter

Description

Method Parameter

Accessor to the slot Parameter in class MeripBamFileList.

Usage

Parameter(x)

## S4 method for signature 'MeripBamFileList'
Parameter(x)

Arguments

x	a MeripBamFileList object.

Value

a list for the additional parameters of the MeRIP-seq experiment.

Examples

GENE_ANNO_GTF = system.file("extdata", "example.gtf", package="exomePeak2")

f1 = system.file("extdata", "IP1.bam", package="exomePeak2")
f2 = system.file("extdata", "IP2.bam", package="exomePeak2")
f3 = system.file("extdata", "IP3.bam", package="exomePeak2")
f4 = system.file("extdata", "IP4.bam", package="exomePeak2")
IP_BAM = c(f1,f2,f3,f4)
f1 = system.file("extdata", "Input1.bam", package="exomePeak2")
f2 = system.file("extdata", "Input2.bam", package="exomePeak2")
f3 = system.file("extdata", "Input3.bam", package="exomePeak2")
INPUT_BAM = c(f1,f2,f3)

f1 = system.file("extdata", "treated_IP1.bam", package="exomePeak2")
TREATED_IP_BAM = c(f1)
f1 = system.file("extdata", "treated_Input1.bam", package="exomePeak2")
TREATED_INPUT_BAM = c(f1)

MeRIP_Seq_Alignment <- scanMeripBAM(
  bam_ip = IP_BAM,
  bam_input = INPUT_BAM,
  paired_end = FALSE
)

Parameter(MeRIP_Seq_Alignment)

---