[Biopython-dev] library to create gel image

Peter biopython at maubp.freeserve.co.uk
Fri Feb 27 10:45:59 UTC 2009

On Fri, Feb 27, 2009 at 9:05 AM, Jose Blanca <jblanca at btc.upv.es> wrote:
>> The example was a bit small - so I had guessed a bit, and it sounds
>> like my guess was wrong.  Do you have a larger example picture?
> I want something like the Genographer software does:
> http://hordeum.oscs.montana.edu/genographer/help/tutorial/tutorial.html
> But I don't need an interactive GUI application, just the gel rendering.

That's much clearer - is the Genographer software showing the actual
image (zoomed as required, with the colours adjusted as required), or
an artificial recreation?

Are you trying to create this figure for illustrative purposes only?
I mean would a slightly cartoon like recreation be fine, or are you
trying to make it as realistic as possible?

Either way, I doubt there will be any existing software for exactly
this purpose - and you will have to create your own code to draw this.

> You can take a look at the code at:
> http://bioinf.comav.upv.es/svn/gelify/gelifyfsa/src/
> Take into account that is just a work in progress.

I see you are having to reverse engineer their file format.  I guess
other people have tried this in the past so there may be more clues
out on the internet.  Have you tried emailing the company to see if
they would publish the file format specifications (unlikely I fear,
but worth asking).


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