This is a Shiny app to run supervised and unsupervised cell type deconvolution methods. It aids in a user-friendly analysis and visualization of various deconvolution algorithms.
mrna_meth_decon is a Docker image which encompasses the following deconvolution algorithms and Shiny along with their dependencies.
(1) immunedeconv
(2) estimate
(3) CellMix
(4) DeconRNASeq
(5) EpiDISH
(6) EDec
(7) medepir
(8) ica
(9) deconica
(10) fastICA
(11) NMF
cd ~/
docker pull ashwinikrsharma/mrna_meth_decon:latest
git clone https://github.com/ashwini-kr-sharma/ShinyCompExplore.git
docker run --rm -it -p 3838:3838 -v ~/ShinyCompExplore:/srv/shiny-server/ ashwinikrsharma/mrna_meth_decon
# Or, for deployment in a Virtual Machine with a public IP
# docker run -d -p 80:3838 -v ~/ShinyCompExplore:/srv/shiny-server/ ashwinikrsharma/mrna_meth_decon
# Wait for few seconds for the shiny app to start
Once you see a message Starting listener on http://[::]:3838, go to your browser (Chrome, Firefox etc) and type in the address bar localhost:3838, wait for some time for the page to load. Now, you should now be able to see the ShinyCompExplore app.
Demo data is made available inside ~/ShinyCompExplore/data/demo, that can be used to test the app.
Raise a Github issue in case you face any problems !!