This repository includes ai workflow for angiogenesis related disease clustering and network analysis
N.B. The user must have Ruby, python and R installed.
1: Clone this repository*
$ git clone git@github.com:ElenaRojano/angio_cluster.git --recurse-submodules
2: Install the workflow manager Autoflow and other required ruby gems throught:
$ gem install autoflow
$ gem install report_html
3: Install PETS tool following the instuctions from https://github.com/ElenaRojano/pets.git
4: Install NetAnalyzer tool following the instuctions from https://github.com/ElenaRojano/NetAnalyzer.git
5: Install ExpHunter suite following the instructions from https://github.com/seoanezonjic/ExpHunterSuite.git
6: Install CDlib python library following this tutorial: https://cdlib.readthedocs.io/en/latest/installing.html
7: Add the next folders to PATH variable.
The workflow can be executed throught executions/launch.sh. This script has different options:
$ ./execution/launch.sh 1 # Download all required files $ ./execution/launch.sh 1b # Prepare download files for workflow $ ./execution/launch.sh 2 # Launch main clustering analysis $ ./execution/launch.sh 2b # Check workflow throught flow_logger $ ./execution/launch.sh 3 # Create matrices correlation graph