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Visualization tools for viewing the genes orientation in the mitogenomes

Hi,

Are there any tools which can generate a figure about the genes orientation by providing a mitogenome sequence ?

Ex. web server MITOS, looking for a command line version which can automate the process.

Suggestions appreciated.

genome structure - gene orientation

gene genome protein
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updated by shelkmike shelkmike • written by sunnykevin97 sunnykevin97

1 answer

If you want to do all in the command line, you can first annotate the genome with MitoZ (https://github.com/linzhi2013/MitoZ) or Mfannot (https://github.com/BFL-lab/Mfannot), then convert the annotation to gff3 format and then draw the genome map using gt_sketch (http://genometools.org/tools/gt_sketch.html).

Actually there are a lot of programs for genome visualization, choose whatever you like: https://cmdcolin.github.io/awesome-genome-visualization/?latest=true. Gt_sketch makes figures like this: enter image description here

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written by shelkmike shelkmike

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