sjteresi
commented
3 years ago @teresi I am going to push the updated naming rules to master later today. I have standardized the EDTA naming scheme. After I upload the code, please download the new file annotation file from Google Drive and delete any "filtered_input_data" from your filtered data folder to make sure it runs with the new data.
I need to brainstorm more about if or how I want to keep the old naming system, at the moment I have just commented out the old replacement scheme. However I see in the future that most people will use the new EDTA naming scheme and we already talked about how people will have to modify the behavior of replace_names to their own liking.
It is likely in the coming weeks that the H4 and Camarosa transposon annotations will be re-done by Shujun and will then conform to the EDTA annotation scheme.
Make sure that the names are consistent and not too many categories are introduced or subtracted.
Make sure that the preliminary graphs are not disrupted too much by a new naming scheme.