[BioC] karyogram

[J.Oosting at lumc.nl]

You may have a look at the quantsmooth package, which has a function
prepareGenomePlot() that can draw all idiagrams of a genome, and the
functions grid.chromosome() and plotChromosome() that can plot ideograms
at any location within a plot.

Jan
 
> -----Original Message-----
> From: bioconductor-bounces at stat.math.ethz.ch [mailto:bioconductor-
> bounces at stat.math.ethz.ch] On Behalf Of Michael Gormley
> Sent: vrijdag 20 juni 2008 2:53
> To: bioconductor at stat.math.ethz.ch
> Subject: [BioC] karyogram
> 
> Are there any packages available for making a karyogram with ideograms
of
> each chromosome?  I have looked at GenomeGraphs, Idiogram and a number
of
> other packages but they seem like they have been designed to draw a
single
> chromosome at a time.   Ideally, I would like to produce pictures
similar
> to
> those obtained from karyoview with a bit more programmatic control.  I
> would
> like to draw ideograms of each chromosome and place a line next to the
> chromosomes to denote the location of some genes of interest.   It
would
> be
> optimal to be able to plot multiple lines next to the chromosomes to
be
> able
> to illustrate multiple features (ie. one might be genes, a second
might be
> copy number variations or single nucleotide polymorphisms).
> 
> Thanks,
> Michael Gormley
> 
> 	[[alternative HTML version deleted]]
> 
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