## R version 3.2.5 (2016-04-14)
## Platform: x86_64-pc-linux-gnu (64-bit)
## Running under: Ubuntu 14.04.4 LTS
##
## locale:
## [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8
## [4] LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C
## [10] LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
##
## attached base packages:
## [1] parallel stats4 stats graphics utils datasets grDevices methods base
##
## other attached packages:
## [1] DESeq2_1.10.0 RcppArmadillo_0.6.300.2.0 Rcpp_0.12.3
## [4] ape_3.4 ggplot2_2.0.0 systemPipeR_1.4.8
## [7] RSQLite_1.0.0 DBI_0.3.1 ShortRead_1.28.0
## [10] GenomicAlignments_1.6.1 SummarizedExperiment_1.0.1 Biobase_2.30.0
## [13] BiocParallel_1.4.0 Rsamtools_1.22.0 Biostrings_2.38.2
## [16] XVector_0.10.0 GenomicRanges_1.22.1 GenomeInfoDb_1.6.1
## [19] IRanges_2.4.4 S4Vectors_0.8.3 BiocGenerics_0.16.1
## [22] BiocStyle_1.8.0
##
## loaded via a namespace (and not attached):
## [1] edgeR_3.12.0 splines_3.2.5 Formula_1.2-1 latticeExtra_0.6-26
## [5] RBGL_1.46.0 yaml_2.1.13 Category_2.36.0 lattice_0.20-33
## [9] limma_3.26.3 digest_0.6.9 RColorBrewer_1.1-2 checkmate_1.6.3
## [13] colorspace_1.2-6 htmltools_0.3 Matrix_1.2-3 plyr_1.8.3
## [17] GSEABase_1.32.0 XML_3.98-1.3 pheatmap_1.0.7 biomaRt_2.26.1
## [21] genefilter_1.52.0 zlibbioc_1.16.0 xtable_1.8-0 GO.db_3.2.2
## [25] scales_0.3.0 brew_1.0-6 annotate_1.48.0 GenomicFeatures_1.22.6
## [29] nnet_7.3-11 proto_0.3-10 survival_2.38-3 magrittr_1.5
## [33] evaluate_0.8 fail_1.3 nlme_3.1-122 foreign_0.8-66
## [37] hwriter_1.3.2 GOstats_2.36.0 graph_1.48.0 tools_3.2.5
## [41] formatR_1.2.1 BBmisc_1.9 stringr_1.0.0 sendmailR_1.2-1
## [45] locfit_1.5-9.1 munsell_0.4.2 cluster_2.0.3 AnnotationDbi_1.32.0
## [49] lambda.r_1.1.7 futile.logger_1.4.1 grid_3.2.5 RCurl_1.95-4.7
## [53] rjson_0.2.15 AnnotationForge_1.12.0 labeling_0.3 bitops_1.0-6
## [57] base64enc_0.1-3 rmarkdown_0.9.2 gtable_0.1.2 codetools_0.2-14
## [61] gridExtra_2.0.0 knitr_1.12 rtracklayer_1.30.1 Hmisc_3.17-0
## [65] futile.options_1.0.0 stringi_1.0-1 BatchJobs_1.6 geneplotter_1.48.0
## [69] rpart_4.1-10 acepack_1.3-3.3