Sorry in advance for the dumb question… I am trying to use GetOrganelle to reconstruct a plant plastome (genome skimming data) and I stay stuck with a message telling me that for mandatory ‘Reference data’ there are no options available (see screenshot below).
I imagine that there must be a way to provide reference data (whether custom - and I can provide some - or Genbank plant plastome database) and that the process must be explained somewhere… but I can’t find the info! Could you help with that ?
Ping @bernt-matthias – do you have any more information to share? I’m guessing this is not quite usable yet at the public sites. Any updates appreciated
For reference, many tools do have an option to supply reference data from the history but this particular tool wrapper was not written that way. The usual function is for a custom genome or other -ome (a fasta file) and the how-to is here Reference Genome FAQs.
Thanks for the rapid answer and update! Ok, so I’ll wait for the implementation of the datasets in Galaxy (thanks for helping with that @bernt-matthias !) and in the meantime will try Get Organelle on other servers!
