Software to display draft genome statistics

Question

[fhsantanna]

I have an annotated draft genome in genbank (and also sqn) format and I would like to see the statistics of it, like the number of genes, proteins, RNAs, total length, etc... Do you know any software that is able to do it? Thanks in advance.

Answer 1

[iraun]

If you have a annotation file of the genome, you can give a try to eval tool. It provides summaries and graphical distributions for many statistics describing any set of annotations.

• Here is the tool: http://mblab.wustl.edu/software.html
• And here a nice and very comprehensive manual: http://mblab.wustl.edu/media/software/eval-documentation.pdf

[fhsantanna]

Problem is that this software only reads GTF file format. I have a multi-genbank file, but I was not able to find a good converter... Thanks anyway.

[iraun]

Oh, sorry, I misunderstood the question, I thought that you had a GTF file. So... maybe you can try this python script to convert your genbank file: http://genome.crg.es/~lpryszcz/scripts/gb2gtf.py. I've not used it, but you can try and check if it works.

[fhsantanna]

I found out that Sequin can generate a "mega report" of sqn files, including all statistics that I wanted. Thanks again.