DESCRIPTION

Project: Nutrigenomics Protein Variant Analysis
Title: Analysis of Protein Variants in Nutrigenomics Contexts
Version: 1.0.0
Author: Bruno Hay Mele; Giovanni M. De Filippis
Maintainer: Giovanni M. De Filippis <giovannimaria.defilippis@unina.it>
Description: This project provides tools for analyzing protein variants in nutrigenomics
    contexts, including variant annotation, functional family classification, and 
    pathogenicity prediction. The analysis integrates data from multiple sources
    including GRPM nutrigenomics datasets, ProtVar annotations, and Pharos functional
    classifications.
License: MIT
Encoding: UTF-8

Required R Version: >= 4.0.0

Required Packages:
    - arrow (>= 12.0.0)
    - biomaRt (>= 2.50.0)  
    - httr (>= 1.4.0)
    - jsonlite (>= 1.8.0)
    - tidyverse (>= 1.3.0)
    - dplyr (>= 1.1.0)
    - ggplot2 (>= 3.4.0)
    - patchwork (>= 1.1.0)
    - yaml (>= 2.3.0)
    - here (>= 1.0.0)
    - readr (>= 2.1.0)
    - stringr (>= 1.5.0)
    - tidyr (>= 1.3.0)
    - purrr (>= 1.0.0)
    - forcats (>= 1.0.0)
    - magrittr

Optional Packages:
    - testthat (>= 3.0.0)
    - knitr
    - rmarkdown

Installation: Run source("setup.R") to install all required packages
Quick Start: Run source("quick_run.R") to execute the complete analysis pipeline