Visualization tools for viewing the genes orientation in the mitogenomes

Question

[sunnykevin97]

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.

Answer 1

[shelkmike]

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: