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