This screener sifts through RNA sequences and scores their similitude to the G4 folding sequences of G4RNA database via G4NN score. It also includes previous scoring system such as G4Hunter and the cG/cC score. – README.md

README.md

README

USER INFO

Instigator

name: Jean-Michel Garant

email: jean-michel.garant@usherbrooke.ca

gitlab username: J-Michel

REPO INFO

gitlab url: gitlabscottgroup.med.usherbrooke.ca/J-Michel/g4rna_screener

Version: G4RNA screener 0.2

DEPENDENCIES

Here are listed dependencies in format:

library_name (recommended version)
From environment
python2.7 (2.7.12)
From Python
biopython (1.68)
numpy (1.11.0)
pandas (0.18.1)
PyBrain (0.3)
regex (2016.9.22)
scipy (0.18.1)

mysql-connector-python (2.1.4) is also highly recommended for automated retrieval of information on UCSC and Ensembl databases using -c, --columns arguments. It is not available through pip but here are the steps to follow to install it:

cd PATH/TO/PYTHON/dist-packages/    or    cd PATH/TO/PYTHON/site-packages/
sudo -i
wget https://dev.mysql.com/get/Downloads/Connector-Python/mysql-connector-python-2.1.4.tar.gz
tar -xzf mysql-connector-python-2.1.4.tar.gz
cd mysql-connector-python-2.1.4
python setup.py install

GLOSSARY