[Biopython] GenomeDiagram: scale down the the track

[Asma Riyaz]

Hi,

Thank you for replying.

I was asking to make arrows appear longer even the feature location is
smaller when compared to the length of the genome. I will try exaggerating
the feature location but don't know if it would turn out right
scientifically. Drawing a smaller region of interest is not really what I
am hoping for as the gene id's I am looking for are located all over the
genome, moreover since these are tracks across multiple organisms, its
difficult to focus on a particular region

Also, sorry for sending multiple mails as for some reason mailing list
rejected each of my mail saying it had a inappropriate subject line
:"[Biopython] GenomeDiagram: scale down the the track".

Thanks
Asma

On Wed, Mar 26, 2014 at 7:05 PM, Peter Cock <p.j.a.cock at googlemail.com>wrote:

> On Wed, Mar 26, 2014 at 6:15 PM, Asma Riyaz <asmariyaz23 at gmail.com> wrote:
> > I am using the multiple tracks example as my base, selecting only "gene"
> > whose id exist in my list and hence I can see the white space to the left
> > and right of the feature.
> >
> > I specified a lower "end" in gd_diagram.draw() but this shows up in such
> a
> > way that everything after the end position is not displayed.
>
> Yes, the start & end arguments are about which sub-region of the
> linear sequence to draw.
>
> > I have attached my figure below.
> >
> > My requirement, I want to show all the ids with an arrow sigil wherever
> it
> > occurs on a genome(which I accomplished) BUT the arrows turn out to be
> too
> > small to make sense of
>
> The length of the sigils (here arrows) is determined by the length
> of the feature (usually base pairs as we're normally drawing DNA),
> relative to the length of the region shown.
>
> If you want to make the arrows look longer, define a larger feature
> location (e.g. if the feature is from 1000 to 1010, exaggerate and
> use 900 to 1020 - perhaps not a good idea?), or draw a smaller
> region of interest, or make the whole diagram bigger etc.
>
> Or are you asking about the vertical height?
>
> Peter
>
> P.S. You seem to have sent this email multiple times, probably
> confused my the automatic moderation of the message because
> of the attachment. The delay is because a human (often me)
> has to manually approve any suspicious emails (which are
> usually spam).
>