Hi Janet, I confirmed this, thanks for reporting, I will fix the bug today! cheers Tengfei On Wed, Dec 4, 2013 at 6:50 PM, Janet Young wrote: > (I also just found the ggbio github bug tracker - submitted this over > there, too - sorry about the double-post) > > > On Dec 4, 2013, at 3:32 PM, Janet Young wrote: > > > Hi there, > > > > I think I found a problem with the way ggbio handles track labels when I > add a main title to the plot. I think the code I've included below should > demonstrate the problem, but let me know if it's not clear. > > > > (and thanks for the nice package!) > > > > Janet > > > > > > library(ggbio) > > > > ## example tracks (taken from ?tracks) > > df1 <- data.frame(time = 1:100, score = sin((1:100)/20)*10) > > p1 <- qplot(data = df1, x = time, y = score, geom = "line") > > df2 <- data.frame(time = 30:120, score = sin((30:120)/20)*10, value = > rnorm(120-30 + 1)) > > p2 <- ggplot(data = df2, aes(x = time, y = score)) + > > geom_line() + geom_point(size = 4, aes(color = value)) > > > > ### plot two tracks with a label - this looks OK > > tracks (p1, p2, main="myTitle") > > > > ### plot two labelled tracks - this look OK > > tracks (p1=p1, p2=p2) > > > > ### adding title to the plot with labelled tracks messes up alignment of > the labels with the plot > > tracks (p1=p1, p2=p2, main="myTitle") > > > > sessionInfo() > > > > R Under development (unstable) (2013-11-06 r64163) > > Platform: x86_64-unknown-linux-gnu (64-bit) > > > > locale: > > [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C > > [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 > > [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 > > [7] LC_PAPER=en_US.UTF-8 LC_NAME=C > > [9] LC_ADDRESS=C LC_TELEPHONE=C > > [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C > > > > attached base packages: > > [1] stats graphics grDevices utils datasets methods base > > > > other attached packages: > > [1] ggbio_1.11.7 ggplot2_0.9.3.1 > > > > loaded via a namespace (and not attached): > > [1] AnnotationDbi_1.25.9 Biobase_2.23.3 BiocGenerics_0.9.1 > > [4] biomaRt_2.19.1 Biostrings_2.31.3 biovizBase_1.11.6 > > [7] bitops_1.0-6 BSgenome_1.31.7 cluster_1.14.4 > > [10] colorspace_1.2-4 DBI_0.2-7 dichromat_2.0-0 > > [13] digest_0.6.4 Formula_1.1-1 > GenomicAlignments_0.99.4 > > [16] GenomicFeatures_1.15.4 GenomicRanges_1.15.10 grid_3.1.0 > > [19] gridExtra_0.9.1 gtable_0.1.2 Hmisc_3.13-0 > > [22] IRanges_1.21.13 labeling_0.2 lattice_0.20-24 > > [25] MASS_7.3-29 munsell_0.4.2 parallel_3.1.0 > > [28] plyr_1.8 proto_0.3-10 RColorBrewer_1.0-5 > > [31] RCurl_1.95-4.1 reshape2_1.2.2 Rsamtools_1.15.12 > > [34] RSQLite_0.11.4 rtracklayer_1.23.3 scales_0.2.3 > > [37] splines_3.1.0 stats4_3.1.0 stringr_0.6.2 > > [40] survival_2.37-4 tools_3.1.0 > VariantAnnotation_1.9.13 > > [43] XML_3.98-1.1 XVector_0.3.2 zlibbioc_1.9.0 > > > > > > > > > > > > ------------------------------------------------------------------- > > > > Dr. Janet Young > > > > Malik lab > > http://research.fhcrc.org/malik/en.html > > > > Fred Hutchinson Cancer Research Center > > 1100 Fairview Avenue N., A2-025, > > P.O. Box 19024, Seattle, WA 98109-1024, USA. > > > > tel: (206) 667 4512 > > email: jayoung ...at... fhcrc.org > > > > ------------------------------------------------------------------- > > > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Tengfei Yin, PhD Seven Bridges Genomics sbgenomics.com 625 Mt. Auburn St. Suite #208 Cambridge, MA 02138 (617) 866-0446 [[alternative HTML version deleted]]