Public Repository

Last pushed: 2 years ago
Short Description
Reference environment for ['Network deconvolution as a general method ... in networks']
Full Description

Overview

This is the reference environment for the manuscript 'Network deconvolution as a general method to distinguish direct dependencies in networks'. It executes code to reproduce specific results described in the manuscript. You can find more information about this research at the project page here.

To find other versions of this reference environment, see Other Links below. To learn more about reference environments, see the detailed description here.

Instructions for use

This version of the reference environment is a Docker container. To use it, install Docker, then do:

$ sudo docker pull uomsystemsbiology/feizi2013network
$ sudo docker run uomsystemsbiology/feizi2013network /sbin/my_init -- ./run_plot_ND_performance_regulatory.sh
$ sudo docker run uomsystemsbiology/feizi2013network /sbin/my_init -- ./run_plot_ND_performance_protein.sh
$ sudo docker run uomsystemsbiology/feizi2013network /sbin/my_init -- ./run_plot_ND_performance_coauthorship.sh

This will execute MATLAB scripts to reproduce the results described in the manuscript, and the output will be written to /home/sbl/feizi_et_al/code.

Note that the scripts in this environment generate MATLAB plots which will not be displayed when accessing the environment as a Docker container, and the scripts above will not terminate after they have completed. To terminate the scripts, press Ctrl-C. Details on the scripts are provided by the authors in /home/sbl/feizi_et_al/code.

To see the generated MATLAB plots, use the virtual machine or ISO versions of the environment described below.

Other links

Manuscript link

Project page link

Bootable ISO

Vagrant-managed virtual machine

Docker Pull Command
Owner
uomsystemsbiology