Simple file format viewer for NGS variant data
Use this package to take a quick peak/inspection at the following types of files
- Gemini TSV output files
- snpEff TSV output files
- AnnoVCF TSV output files
library(devtools)
install_github("freezecoder/ngsrview")
library(shiny)
library(DT)
library(shinyjs)
library(data.table)
library(googleVis)
library(ggplot2)
library(rjson)
genericNGSTestApp()
Open a browser to the port the shiny app is running, then upload some files.
Download this input file and use it as an input to the viewer. The file should have a .vtbl.tsv extension so it is recognized as containing variant information.
wget https://raw.githubusercontent.com/freezecoder/ngsrview/master/inst/extdata/sample_vtable.tsv -O sample.vtbl.tsv
Use the file upload button to upload this file and see the different result tabs in the viewer