You could try package GenomeGraph which pull data from Biomart to
annotation tracks inside R.
If you are familiar with core Bioc object like GRanges/TranscriptDb,
can try package ggio, you need to construct your data as GRanges and
them by tracks() function. or grid.arrange() in gridExtra package.
a new package, let me know if you come across any problem or you want
request a new feature.
Or you can fire your data into UCSC genome browser inside R, check
browserGenome function in package rtracklayer.
Interaction between locus is tricky, I don't know about other
there is any, please let me know, thanks), it could be represented as
in circular view, or links in a grand linear view, which is currently
still under development in ggbio and visnab, I will keep you post it,
you would like to test some functionality.
On Wed, Nov 9, 2011 at 11:30 PM, Bogdan Tanasa <firstname.lastname@example.org>
> Dear all,
> I would appreciate if you can recommend any BioC package where I can
> display togheter a set of features/annotations (eg genes, TF binding
> sites), and 3C interactions data (the 3C chromosomal interactions
> represented as lines between interaction loci, or just simply as
> count for an interaction strength at a particular position). thanks,
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MCDB PhD student
1620 Howe Hall, 2274,
Iowa State University
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