Mercurial > repos > bgruening > diffbind
diff test-data/out_analysis_info.txt @ 11:4c7ab9995f9e draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/diffbind commit cc4c1c4131518b9cbf986a1f252767ff73ca938e
| author | iuc |
|---|---|
| date | Sat, 07 Apr 2018 15:45:41 -0400 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/out_analysis_info.txt Sat Apr 07 15:45:41 2018 -0400 @@ -0,0 +1,83 @@ +dba.count Info + +4 Samples, 1394 sites in matrix (2141 total): + ID Tissue Condition Caller Intervals +1 MCF7_ER_1_bed MCF7_ER_1_bed Responsive macs 1556 +2 MCF7_ER_2_bed MCF7_ER_2_bed Responsive macs 1046 +3 BT474_ER_1_bed BT474_ER_1_bed Resistant macs 1080 +4 BT474_ER_2_bed BT474_ER_2_bed Resistant macs 1122 + +dba.analyze Info + +4 Samples, 1394 sites in matrix: + ID Tissue Condition Caller Intervals FRiP +1 MCF7_ER_1_bed MCF7_ER_1_bed Responsive counts 1394 0.38 +2 MCF7_ER_2_bed MCF7_ER_2_bed Responsive counts 1394 0.22 +3 BT474_ER_1_bed BT474_ER_1_bed Resistant counts 1394 0.27 +4 BT474_ER_2_bed BT474_ER_2_bed Resistant counts 1394 0.25 + +1 Contrast: + Group1 Members1 Group2 Members2 DB.DESeq2 +1 Responsive 2 Resistant 2 5 + +SessionInfo + +R version 3.4.1 (2017-06-30) +Platform: x86_64-apple-darwin14.5.0 (64-bit) +Running under: OS X El Capitan 10.11.6 + +Matrix products: default +BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib +LAPACK: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libLAPACK.dylib + +locale: +[1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_US.UTF-8 + +attached base packages: +[1] parallel stats4 methods stats graphics grDevices utils +[8] datasets base + +other attached packages: + [1] bindrcpp_0.2 rjson_0.2.15 + [3] DiffBind_2.6.6 SummarizedExperiment_1.8.0 + [5] DelayedArray_0.4.1 matrixStats_0.52.2 + [7] Biobase_2.38.0 GenomicRanges_1.30.3 + [9] GenomeInfoDb_1.14.0 IRanges_2.12.0 +[11] S4Vectors_0.16.0 BiocGenerics_0.24.0 +[13] getopt_1.20.0 + +loaded via a namespace (and not attached): + [1] Category_2.44.0 bitops_1.0-6 bit64_0.9-5 + [4] RColorBrewer_1.1-2 progress_1.1.2 httr_1.3.1 + [7] Rgraphviz_2.22.0 tools_3.4.1 backports_1.0.5 + [10] R6_2.2.2 rpart_4.1-13 KernSmooth_2.23-15 + [13] Hmisc_4.0-3 DBI_0.8 lazyeval_0.2.1 + [16] colorspace_1.3-2 nnet_7.3-12 gridExtra_2.3 + [19] DESeq2_1.18.1 prettyunits_1.0.2 bit_1.1-12 + [22] compiler_3.4.1 sendmailR_1.2-1 graph_1.56.0 + [25] htmlTable_1.9 labeling_0.3 rtracklayer_1.38.0 + [28] caTools_1.17.1 scales_0.5.0 checkmate_1.8.2 + [31] BatchJobs_1.6 genefilter_1.60.0 RBGL_1.54.0 + [34] stringr_1.3.0 digest_0.6.12 Rsamtools_1.30.0 + [37] foreign_0.8-67 AnnotationForge_1.20.0 XVector_0.18.0 + [40] htmltools_0.3.6 base64enc_0.1-3 pkgconfig_2.0.1 + [43] limma_3.34.6 htmlwidgets_1.0 rlang_0.2.0 + [46] RSQLite_2.0 BBmisc_1.11 bindr_0.1.1 + [49] GOstats_2.44.0 hwriter_1.3.2 BiocParallel_1.12.0 + [52] gtools_3.5.0 acepack_1.4.1 dplyr_0.7.4 + [55] RCurl_1.95-4.8 magrittr_1.5 Formula_1.2-1 + [58] GO.db_3.5.0 GenomeInfoDbData_0.99.1 Matrix_1.2-12 + [61] Rcpp_0.12.15 munsell_0.4.3 stringi_1.1.6 + [64] edgeR_3.20.7 zlibbioc_1.24.0 gplots_3.0.1 + [67] fail_1.3 plyr_1.8.4 grid_3.4.1 + [70] blob_1.1.1 ggrepel_0.7.0 gdata_2.18.0 + [73] lattice_0.20-34 Biostrings_2.46.0 splines_3.4.1 + [76] GenomicFeatures_1.28.5 annotate_1.56.0 locfit_1.5-9.1 + [79] knitr_1.20 pillar_1.2.1 systemPipeR_1.12.0 + [82] geneplotter_1.56.0 biomaRt_2.34.2 glue_1.2.0 + [85] XML_3.98-1.6 ShortRead_1.36.0 latticeExtra_0.6-28 + [88] data.table_1.10.4 gtable_0.2.0 amap_0.8-14 + [91] assertthat_0.2.0 ggplot2_2.2.1 xtable_1.8-2 + [94] survival_2.40-1 tibble_1.4.2 pheatmap_1.0.8 + [97] GenomicAlignments_1.14.1 AnnotationDbi_1.40.0 memoise_1.1.0 +[100] cluster_2.0.6 brew_1.0-6 GSEABase_1.40.0