It's based on Joachim Johansen's thesis on phage genomics. The thesis has been stripped and could further be made less specific to the examples from the thesis.

View the original thesis or the one created with this template

You can create the template from the repository using overleaf, see instruction on how to create an overleaf project from an exisiting git repository.

The general workflow of thesis writing was:

1. Write the thesis core in a google doc with paperpile as reference manager.
2. Review and get feedback in google docs
3. Export the thesis when ready (either by copy-pasting or using pandoc) to overleaf
4. Export paperpile references from as a bibtex file from the google doc
5. Add back references, typeset and polish everything in overleaf
6. Optional: Combine the pdf created with overleaf with the frontpage created elsewhere