Updated the gist, using the SqliteIndexStorage directly made this super easy. The graph is usable, but there's more one could do to it.

What a great idea! I really would like to see that included in sourcetrail, as it allows to perform further, graph based architecture analysis. Please include this feature in the next release of sourcetrail!

I could imaging this to be availabe via a command line call. The current API looks like this:

$ Sourcetrail.exe -h
Usage:
  Sourcetrail [command] [option...] [positional arguments]

Commands:
  config                 Change preferences relevant to project indexing.*
  index                  Index a certain project.*

  * has its own --help

Options:
  -h [ --help ]          Print this help message
  -v [ --version ]       Version of Sourcetrail
  --project-file arg     Open Sourcetrail with this project (.srctrlprj)

Positional Arguments:
  1: project-file

For this feature I could imaging an export-graphml command that also requires the --project-file option to know for which project the graphml shall be exported. If anyone wants to implement this, please go ahead!