README.md

Rockbio - Cloud based genome analysis and tools.

This is an online tool developed to help doctors and scientists to analyse NGS data and identify disease causing variants using WES and WGS sequencing data from patients with Mendelian Disorders.

Rockbio is based on Mendel,MD, but it's got a lot more to it now, so please try our servers on https://rockbio.io

Installation/Development

git clone https://github.com/rockbio/rockbio/
cd rockbio/
docker-compose up

Or using python3, virtualenv and pip:

python3 -m venv venv
source venv/bin/activate
pip3 install -r requirements.txt
./manage.py migrate
./manage.py runserver
# Then on another window for running the background tasks with Celery type:
source venv/bin/activate
./manage.py celery

Installation with Curl (to-do)

curl -Sf https://install.rockbio.io | bash

Installation using Docker

git clone https://github.com/rockbio/rockbio
cd rockbio
docker-compose up

Installation with pip (to-do)

pip3 install rockbio
rockbio runserver

Installation with conda (to-do)

conda install -c conda-forge rockbio
rockbio runserver

Using Dockerhub (to-do)

docker run rockbio/rockbio

Using SNAPs

sudo snap install code --classic

Using APT

sudo apt install rockbio

Deployment

wget https://raw.github.com/rockbio/rockbio/master/scripts/deployment_ubuntu_22.04_LTS.sh
bash deployment_ubuntu_22.04_LTS.sh

Sources

http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005520

https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-16-S8-A2

https://www.genomeweb.com/informatics/software-tool-aims-easy-quick-mendelian-disease-diagnoses-genome-data

https://github.com/raonyguimaraes/rockbio