1 Quickstart

Step 1: Pre-install Required Package

install.packages("BiocManager")
BiocManager::install(version = "3.19")
BiocManager::install("qvalue")

Step 2: Install the ShiNyP Package from GitHub

install.packages("remotes") 
remotes::install_github("TeddYenn/ShiNyP", force = TRUE)

Step 3: Start the ShiNyP Platform

library(ShiNyP)
ShiNyP::run_ShiNyP()

Step 4: Run ShiNyP Analysis

Input your SNP data in VCF format, or feel free to use our Demo Data.

Note: If you run in RStudio, you can click the Open in Browser button.

This is the user guide page for ShiNyP, live at https://teddyenn.github.io/ShiNyP-guide/.

ShiNyP is also accessible online at https://teddyhuang.shinyapps.io/ShiNyP/. But, please note that due to limited memory usage on this platform, we DO NOT RECOMMEND using it to analyze large SNP dataset. The online version is intended solely as a demo website for demonstration purposes. For real data analysis, please consider downloading the platform from GitHub repository https://github.com/TeddYenn/ShiNyP and running it locally on the R environment.

  • Oct 2024: Initial release v1.0.0 of ShiNyP on GitHub.