Quantcast
Channel: Byte Size Biology » Linux
Viewing all articles
Browse latest Browse all 4

A Simple Genome Annotator?

0
0

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!


Viewing all articles
Browse latest Browse all 4

Latest Images

Trending Articles





Latest Images