SNIPER

SNIPER is a framework to detect riboSNitch-enriched elements (5'UTR, 3'UTR and lncRNAs) in cancer genome.

Requirement

1. ViennaRNA RNAplfold
   
2. Perl package:
   Data::Dumper
   Statistics::R
   3.bedtools
   4.human reference genome (.fa)
   5.gene annotation (.gtf)
   

Preparation

cd preparation
sh run.sh

Pipeline

cd test ln -s ../preparation/All.NR.filter.fasta .
ln -s ../preparation/Chrpos_RNApos.txt .
ln -s ../preparation/Ref.list .
sh run.sh