bornea/apostl_shiny repository overview

⁠ Automated Processing of SAINT Templated Layouts

⁠APOSTL Docker Image

The APOSTL Docker Image is a running version of Galaxy, Shiny and all of the APOSTL tools built on a CentOS 7 framework.

Within docker to get the image started use

docker run -p 8080:8080 -p 3838:3838 -ti bornea/apostl_shiny /bin/bash

The image will be running in interactive mode so you can change information in the /galaxy-apostl-docker/config/galaxy.ini.sample to reflect the network configuration. It is recommended that the galaxy server is started once in the interactive mode.

cd /galaxy-apostl-docker
sh run.sh

Once the startup has completed escape with a Keyboard Interrupt and restart Galaxy in daemon mode and start the shiny server.

sh run.sh --daemon
sh ./shiny_galaxy_run.sh

APOSTL should be accessable from a web browser at http://127.0.0.1:8080⁠. If using a non-linux OS then the IP is determined by how the docker virtual machine is set up.

⁠References

1. Teo G, Liu G, Zhang J, Nesvizhskii AI, Gingras A-C, Choi H. SAINTexpress: improvements and additional features in Significance Analysis of INTeractome software. J Proteomics. 2014 Apr 4

2. Zybailov B, Mosley AL, Sardiu ME, Coleman MK, Florens L, Washburn MP. Statistical Analysis of Membrane Proteome Expression Changes in Saccharomyces cerevisiae. J Proteome Res. 2006 Apr 10

3. Knight JD, Liu G, Zhang JP, Pasculescu A, Choi H, Gingras AC. A web-tool for visualizing quantitative protein-protein interaction data. Proteomics. 2015 Jan 19

⁠Contact us

APOSTL support is provided by the Haura and Rix labs:

• Adam Borne: [email protected]⁠
• Brent Kuenzi: [email protected]⁠
• Paul Stewart, PhD: [email protected]⁠