Re: maker2jbrowse error: Don't know how to format iprscan tracks, skipping
The maker2jbrowse inside maker is just an alias that launches the maker2jbrowse script inside of jbrowse itself (i.e. …/jbrowse-1.16.8-release/bin/maker2jbrowse). No longer maintained by us, but rather by the jbrowse team.
You can edit the maker2jbrowse script yourself to add an ‘iprscan' line or any other feature type you want by copying an existing feature in this section (image attached) and renaming values such as ‘blastn’ to be ‘iprscan’ (these are the command line options that get sent to flatfile-to-json.pl just as if you were runninging it manually) —>
For '--type’, I believe ‘iprscan’ uses ‘match’ in the GFF3 column, so instead of ‘protein_match’ or ‘expressed_sequence_match’, just trim it to ‘match’ in the maker2jbrowse section as well.
You also must edit the …/jbrowse/css/maker.scss file to choose what colors you want the feature display to have. Similar to the example above, just copy an existing feature and make a new one where you replace names like ‘blastn' with ‘iprscan’ (image attached) —>