On Mon, Dec 5, 2011 at 9:26 AM, Peter Rice <p...@ebi.ac.uk> wrote: > On 12/05/2011 09:16 AM, Hans-Rudolf Hotz wrote: >> >> Thanks to the Galaxy framework, our lab scientist are using more and >> more EMBOSS tools. Now, it would be very handy if there was an EMBOSS >> drawing tool (even a very simple one) which takes an embl or genbank >> file as input and creates something "colorful". By default each Key or >> Qualifier is given a specific color and shape (eg 'arrow'). And you can >> change them as options. > > Interesting suggestion. Can you send an example of what you > would like to see? > > You can use your favourite drawing tool if you like, but it is OK if > you draw it in crayon, scan it and send the image :-) >
I use Biopython's GenomeDiagram for this sort of thing, which internally uses a Python library called ReportLab which can produce PDF, SVG, PNG, etc. Sadly I doubt that would be suitable for EMBOSS which would really want a C library. GenomeDiagram has the notion of tracks - which can be useful for separating different types of features which would otherwise overlap (e.g. gene/mRNA/CDS) and other tricks. It also has some defaults about which feature qualifiers to use as the feature name (e.g. gene, locustag). I have considered writing a Galaxy tool to take an EMBL or GenBank file and produce a picture, but haven't got round to it yet. Anyway, there may be some useful ideas for layout here if nothing else. Peter _______________________________________________ EMBOSS mailing list EMBOSS@lists.open-bio.org http://lists.open-bio.org/mailman/listinfo/emboss