A Simple Genome Annotator?
A question to genome annotators out there. I need a simple genome annotator for annotating bacteriophage genomes in an undergraduate course. Until now, we used DNAMaster but for various reasons I would like to move away from that. Here’s what I need for class:
1. Annotate a single assembled linear chromosome, about 50,000 bp, 80-120 genes, no introns (it’s a bacteriophage). Annotation consists of ORF calling and basic functional annotation (can be done in conjunction with BLAST / InterProscan etc).
2. Simple learning curve, these are undergraduates with no experience in the field.
3. Preferably Linux compatible
4. Can read FASTA, GenBank, GFF3
5. Output in a standard format, i.e. GenBank / GFF3.
6. Simple installation, preferably no unwieldy many-tabled databases.
I’ve been playing with Artemis using a Glimmer3 annotated genome and it seems OK so far, but what else is out there?
Please comment here and/or tweet @iddux with your ideas. Thanks!
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