rna_bam.ribo3: rna_bam.ribo3

In hsinyenwu/RiboPlotR: Plot Periodicity of Ribosome Profiling Data

rna_bam.ribo3

Description

This function obtains the RNA-seq bam file, ribo-seq p-site file, degradome, CAGE file paths and the labels for the y-axis of plots

Usage

rna_bam.ribo3(
  Ribo1,
  DEGdata,
  CAGEdata,
  RNAseqBam1,
  RNAlab1 = "RNA",
  RNAseqBamPaired = "paired",
  Ribolab1 = "Ribo",
  S_NAME1 = "CTRL_Ribo",
  S_NAME2 = "CTRL_Deg",
  S_NAME3 = "CTRL_CAGE",
  RNAbackground = "#FEFEAE"
)

Arguments

Ribo1	The first ribo-seq tsv file path.
DEGdata	The second ribo-seq tsv file path.
CAGEdata	The second ribo-seq tsv file path.
RNAseqBam1	The first RNA-seq bam file path.
RNAlab1	The y-axis label for the first RNA-seq datasets.
RNAseqBamPaired	Whether the RNA bam is paired-end. Enter "single" for single-end bam file. "paired" for paired-end bam file (default).
Ribolab1	The y-axis label for the first ribo-seq datasets.
S_NAME1	Sample 1 name
S_NAME2	Sample 2 name
S_NAME3	Sample 3 name
RNAbackground	The background color for RNA-seq results

Value

Assign pathes or tsv files to global environment required for downstream analysis

hsinyenwu/RiboPlotR documentation built on Sept. 15, 2023, 12:29 a.m.