https://www.preprints.org/manuscript/202005.0376/v1


Computational strategies to combat COVID-19: Useful tools
to accelerate SARS-CoV-2 and Coronavirus research


Detection and annotation
========================

PriSeTi				https://github.com/mariehoffmann/PriSeT
CoVPipe				https://gitlab.com/RKIBioinformaticsPipelines/
ncov_minipipe			https://github.com/replikation/poreCov
VADR				https://github.com/nawrockie/vadr
V-Pipe				https://github.com/cbg-ethz/V-pipe
Haploflow			https://nextcloud.bifo.helmholtz-hzi.de/s/j4MyspJs5kfdZxy
VIRify				https://github.com/EBI-Metagenomics/emg-viral-pipeline
VBRC genome analysis tools	https://www.4virology.net
VIRULIGN			https://github.com/rega-cev/virulign
Rfam COVID-19			https://rfam.org/covid-19
UniProt COVID-19		https://covid-19.uniprot.org/
Pfam				https://pfam.xfam.org


Tracking, epidemiology and evolution
====================================

Covidex				https://sourceforge.net/projects/covidex
Pangolin			https://github.com/hCoV-2019/pangolin/
BEAST2				https://www.beast2.org/
Phylogeographic reconstruction	https://github.com/hzi-bifo/Phylogeography_Paper
COPASI				https://github.com/copasi
COVIDSIM			http://www.kaderali.org:3838/covidsim
CoV-GLUE			http://cov-glue.cvr.gla.ac.uk/
PoSeiDon			https://github.com/hoelzer/poseidon


Drug design
===========

VirHostNet			http://virhostnet.prabi.fr/
CORDITE				https://cordite.mathematik.uni-marburg.de
CoVex				https://exbio.wzw.tum.de/covex/
P-HIPSTer			http://www.phipster.org/
