software2install.md

Please have the following open source software installed at your workstation/server in order to run both pipe-lincRNAs.pl and pipe-ASlncRNAs.pl scripts appropriately.

bedtools (http://bedtools.readthedocs.io/en/latest/)

BioPerl (http://bioperl.org/)

CPC (http://cpc.cbi.pku.edu.cn/)

EMBOSS suite (http://emboss.sourceforge.net/)

InterProscan (https://www.ebi.ac.uk/interpro/interproscan.html)

RepeatMasker (http://www.repeatmasker.org/)

riboPicker (http://ribopicker.sourceforge.net/)

TransDecoder (https://transdecoder.github.io/)