Hi Bogdan, You might also want to take a look at the new r3Cseq package. Marc On 11/09/2011 10:14 PM, Tengfei Yin wrote: > Hi Bogdan, > > You could try package GenomeGraph which pull data from Biomart to create > annotation tracks inside R. > > If you are familiar with core Bioc object like GRanges/TranscriptDb, you > can try package ggio, you need to construct your data as GRanges and bundle > them by tracks() function. or grid.arrange() in gridExtra package. ggbio is > a new package, let me know if you come across any problem or you want to > 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 packages(if > there is any, please let me know, thanks), it could be represented as links > 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, if > you would like to test some functionality. > > cheers > > Tengfei > > On Wed, Nov 9, 2011 at 11:30 PM, Bogdan Tanasa<tanasa at="" gmail.com=""> wrote: > >> 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 will be >> represented as lines between interaction loci, or just simply as dots that >> count for an interaction strength at a particular position). thanks, >> >> bogdan >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> > >