Contributing, Feature Requests, and Bug Reports

Contributions and feedback are very welcome! We tried our best to make the denofo annotation format and toolkit as open and easily accessible as possible and tested the toolkit extensively. However, there will always be some bugs on specific platforms or with specific combinations of hardware/software. Also, some bugs will sneak into the codebase over time with changes in our dependencies or features we add. If you find any bug or have trouble with our toolkit, please reach out to us either on GitHub or via email. The more information you can provide about the error or bug, the faster we will be able to help you or fix it, but it does not matter if you know exactly what the issue is. We would still like to hear about all problems with denofo.

We are fully aware that de novo gene research is a very young and fast-moving field, where a large variety of methods and terms is used, and this makes it difficult to standardize everything to the satisfaction of everyone. We want to encourage the scientific community to discuss here also about all changes or novel developments of the field and how we can put these in better ways into the annotation format or the toolkit. If you are missing any features in the denofo toolkit that would make your work easier or would be a great addition in your opinion, please let us know and we will try to implement them over time!