[maker-devel] Adapting MAKER pipeline for my HPC

[Steven L. Miller]

Sorry to say probably not a new issue.  I saw that MAKER is an easy-to-use genome annotation pipeline designed to be usable by small research groups with little bioinformatics experience.  That statement describes me to a t.  I am new to Whole Genome Sequencing and associated analysis, and have a limited skill set with computers.  I have a a 1.52 GB, 75k unitigs, non-photosynthetic vascular plant assembly for which I would like to predict functional genes.  I have tried to follow the tutorial that you have posted for Winter School 2018 to see if I can duplicate your installation and implementation for my HPC.  I doubt that you will be impressed, but I recently received a “certificate” for completing our HPC Linux course path the University of Wyoming. .  I realize now how much I don’t know and how much work it will take to complete an annotation, but I am needing to generate at least some preliminary data to include in an upcoming grant submittal (~2 months).

 I read your MAKER wiki page, but it seems that it hasn’t been completed in many cases, with many important parts (important parts to me, in any case) under construction.

I am writing to get any help I can to find a way forward in my project.  Any suggestions and any help you can provide would be gratefully accepted!


Sincerely,
Steve Miller
Botany
University of Wyoming
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://yandell-lab.org/pipermail/maker-devel_yandell-lab.org/attachments/20211005/1a05caf5/attachment-0002.html>