virus_orf_finder

A web app based on shiny, DECIPHER, NCBI ORFfinder and BLAST

Virus ORF Finder workflow

1. preparatory work

pull docker image

docker pull yumapsc/vorffinder2.0

clone the repository

git clone https://github.com/mayupsc/virus_orf_finder

run docker image

docker run --name shiny -d -p 3838:3838 -v viral_genome:/srv/shiny-server/ yumapsc/virus_orf_finder

2. Upload Virus genome files

3. Set Minimal ORF length for ORF finder (default:50)

4. Choose interest virus(default:AJ489258.1) and set Expectation value(E) threshold for BLAST(default:1e-10)

5. Click 'Calculator' menu and wait for two minutes

6. Click 'One ORF' submenu and then you will see hits alignment and distribution.You can select the ORF that you are

interested in.