RNA-to-DNA-Reverse-Transcription-and-Nucleotide-Frequency-Analysis

This project aims to showcase the reverse transcription of RNA sequences into DNA sequences and analyze the nucleotide frequencies, including di-nucleotide and tri-nucleotide frequencies.

Install Required Packages

Before running the program, make sure to install the necessary R packages:

install.packages("qPCRtools")
install.packages("Biostrings")
install.packages("magrittr")
library(qPCRtools)
library(magrittr)
library(Biostrings)

Input RNA Sequences

Provide the RNA sequences in fasta format, RNA-sequence1.fna and RNA-sequence2.fna.

Run the Program

Execute the R script provided in the repository to perform the following steps:
Read RNA sequences from fasta files.
Reverse transcribe RNA sequences to DNA.
Calculate di-nucleotide and tri-nucleotide frequencies.
Compare nucleotide compositions between sequences.
Identify differences exceeding a threefold threshold.