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BFL-lab / Mfannot

MFannot is a program for the annotation of mitochondrial and plastid genomes
GNU General Public License v3.0
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Sequin file missing a gene predicted in the .new file #47

Closed RyanGawryluk closed 3 years ago

RyanGawryluk commented 3 years ago

Hello,

I am trying to annotate several mitochondrial genomes and I have noticed that in some cases, mfannot predicts genes (seemingly accurately) in the .new file, but there is no corresponding entry in the sequin file, so my final mitochondrial genome map is missing genes. It's not completely clear why this is happening, but it seems that it may happen in some cases where mfannot is not completely sure of where the start of the 'missing' gene is (e.g., starts inferred by similarity).

Is this a known issue, and if so, is there an easy way around it?

Thanks!

natacha-beck commented 3 years ago

Hello,

Indeed your observation is right, but it is not a bug. MFannot put only the gene identified perfectly in the sqn file. We do not want people to directly submit the sqn file.

MFannot as you saud predicts genes (seemingly accurately) we want people to double check the result and validate the *sqn file.

Best