pttparseR

A simple R and SHINY package based interface to parse ptt file and visualize bacterial genome

Requirement:

Shiny package installed in R

library(shiny)

Run a tar or zip file directly

runUrl("https://github.com/karthicklaksman/pttparseR/archive/master.tar.gz") runUrl("https://github.com/karthicklaksman/pttparseR/archive/master.zip")

Or you can clone the git repository, then use runApp():

First clone the repository with git.

f you have cloned it into /pttparseR, first go to that directory, then use runApp(). setwd("/pttparseR") runApp()

GUI Usage help:

Copy paste ptt file link with organism folder from ncbi ftp site. go to site: ftp://ftp.ncbi.nlm.nih.gov/genomes/archive/old_refseq/Bacteria/

Paste the organism directory and ptt file line as shown below, in the add link text box Acaryochloris_marina_MBIC11017_uid58167/NC_009930.ptt