PAmotif: Metaplot of P site distribution
In jianhong/ribosomeProfilingQC: Ribosome Profiling Quality Control

PAmotif

R Documentation

Metaplot of P site distribution

Description

Metaplot of P site distribution in all the CDS aligned by the start codon or stop codon.

Usage

PAmotif(reads, genome, plot = TRUE, ignore.seqlevelsStyle = FALSE)

Arguments

`reads`	Output of assignReadingFrame or shiftReadsByFrame.
`genome`	A BSgenome object.
`plot`	Plot the motif or not.
`ignore.seqlevelsStyle`	Ignore the sequence name style detection or not.

Value

A pcm object

Examples

pcs <- readRDS(system.file("extdata", "samplePc.rds",
               package="ribosomeProfilingQC"))
library(BSgenome.Drerio.UCSC.danRer10)
#PAmotif(pcs, Drerio)

jianhong/ribosomeProfilingQC documentation built on Nov. 3, 2024, 6:33 p.m.