Question

Plot sequences using matplotlib

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5.9 years ago

N Mukherjee • 0

I want to plot sequence from a fasta file. plot the sequence using matplotlib... How can I do this ? I want a plot like this one...

sequencing matplotlib fasta plot • 4.3k views

ADD COMMENT • link 5.9 years ago by N Mukherjee • 0

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plot the sequence using matplotlib.

What does that mean? How should your plot look like?

ADD REPLY • link 5.9 years ago by WouterDeCoster 47k

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I want to plot the sequence in a straight line....different color for A T G and C

ADD REPLY • link 5.9 years ago by N Mukherjee • 0

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Still not clear to me. Do you have an example? Or can you draw something on paper?

ADD REPLY • link 5.9 years ago by WouterDeCoster 47k

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https://ibb.co/nNcc58 I want something just like the circled area..

ADD REPLY • link 5.9 years ago by N Mukherjee • 0

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It's a shame it took us 11 hours to figure out what you need, while that information should have been part of your initial question.

See also How to add images to a Biostars post

ADD REPLY • link 5.9 years ago by WouterDeCoster 47k

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sorry for that ...can you help me ?

ADD REPLY • link 5.9 years ago by N Mukherjee • 0

score 2 · Answer 1 · 2018-06-04

It will be a lot of work to code something like that in MPL from scratch I suspect. Take a look at BioPython, which has some graphical tools.

If you just want to view a sequence and its translation, I would suggest using a proper browser like SnapGene, Artemis, Geneious, CLC, Jalview or any number of other alternatives.