theislab / MetaMap-web

This interactive web tool facilitates exploration of the MetaMap resource (Simon et al. bioRxiv). In this large scale re-analysis raw RNA-seq data from over 400 studies relevant to human disease were screened for microbial and viral reads.

Getting started

You can start by running the following.

shiny::runApp('R')

If you are using a custom directory, instead of "R", make sure to include the following files and directories:

• R/global.R
• R/ui.R
• R/server.R
• R/methods.R
• R/plots.R
• R/www

Package

This app can also be built as a package.

Call MetaMap::launch().

Bookmarks

To save bookmarks, click on the bookmark button in the top right.

You can either copy the full URL or create a prettier URL mapping:

For the latter, create inst/data/bookmarks.json containing {"Study1": "af689dc..."} with names of your choice and IDs taken from _state_id=af689dc... in the URL the button gave you.

Now you can link to http://your.metamap.instance/?example=Study1

Note

The krona plot will not work on windows.