[BioC] RCircos 2D track plot for a small region of genome

Mark Carty [guest] guest at bioconductor.org
Thu Jan 2 22:41:02 CET 2014


I’ve been working with the R package RCircos for a short while. I’d like to make Circos 2D track plot localized to a small region of genome (say 700kb-800kb on chr1).  Does anyone know how this can be done?


 -- output of sessionInfo(): 

R version 3.0.2 (2013-09-25)
Platform: x86_64-apple-darwin10.8.0 (64-bit)

[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
 [1] splines   grid      parallel  stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
 [1] rtracklayer_1.22.0                 Rsamtools_1.14.2                   RCircos_1.1.2                      BSgenome.Hsapiens.UCSC.hg18_1.3.19
 [5] BSgenome_1.30.0                    Biostrings_2.30.1                  faraway_1.0.5                      plyr_1.8                          
 [9] pscl_1.04.4                        vcd_1.3-1                          gam_1.09                           coda_0.16-1                       
[13] mvtnorm_0.9-9996                   MASS_7.3-29                        Hmisc_3.13-0                       Formula_1.1-1                     
[17] survival_2.37-4                    lattice_0.20-24                    cluster_1.14.4                     GenomicRanges_1.14.4              
[21] XVector_0.2.0                      IRanges_1.20.6                     BiocGenerics_0.8.0                 Matrix_1.1-1.1                    

loaded via a namespace (and not attached):
[1] bitops_1.0-6     colorspace_1.2-4 RCurl_1.95-4.1   stats4_3.0.2     tools_3.0.2      XML_3.95-0.2     zlibbioc_1.8.0  

Sent via the guest posting facility at bioconductor.org.

More information about the Bioconductor mailing list