Files in spell098/rnaseq_app

.Rbuildignore
.Rprofile
.gitignore
DESCRIPTION
NAMESPACE
R/MAPlot.R R/PCA.R R/RDA_factors.R R/WGCNA_modules.R R/addColorsMatrix.R R/addColorsMatrixResults.R R/affy2ensembl.R R/annotate_ensembl.R R/annotation_geo.R R/boxplot_element.R R/clusteringSummary.R R/colorNumericValues.R R/color_groups.R R/comparisonsPheno.R R/conditionsChoice.R R/design_contrasts.R R/export2cytoscape.R R/exprToBind.R R/fuzzy_clustering.R R/geneOntology.R R/get_comparisons.R R/get_names.R R/lm2Contrast.R R/meanMatrix.R R/modules_summary.R R/namesSelectedComparisons.R R/network.graphite.R R/numberNames.R R/order_list.R R/plotCorrectAttribution.R R/plotCorrectSubsample.R R/possibleComparisons.R R/reactions.R R/resultsByOntology.R R/results_summary.R R/results_topTable.R R/selectTopReaction.R R/signifRows.R R/transcript_count.R R/volcanoPlot.R R/wes.R README.md
annotations/databases/affygene.csv
annotations/databases/allGO.csv
annotations/databases/allGO.ssv
annotations/databases/allGO.txt
annotations/databases/go_human.ssv
annotations/databases/go_human.txt
annotations/databases/hgnc.csv
annotations/databases/rat_symbols.csv
annotations/databases/rat_symbols.txt
annotations/databases/rn5_annotation.txt
annotations/databases/rn5_annotation_3utr.txt
annotations/databases/rn5_annotation_5utr.txt
annotations/databases/rn5_annotation_coding_exons.txt
annotations/databases/rn5_annotation_introns.txt
annotations/databases/rn5_annotation_promoters_upstream_3000.txt
annotations/gene_names.csv
annotations/gene_names.ssv
annotations/genes_annotations.csv
annotations/go.csv
annotations/go.txt
data/.Rapp.history
data/bnet.rds
data/bnet_LGVD.rds
data/expr_matrix_LGVD.rds
data/reactions_DORSAL\VENTRAL.rds
data/reactions_a1\a2\a3.rds
data/reactions_a1\a3\a2.rds
data/reactions_a3\a1\a2.rds
data/reactions_fuzz)
)
data/reactions_mfuzz.rds
data/results_LGVD.rds
data/topTable3_LGVD.rds
man/MAPlot.Rd man/PCA.Rd man/RDA_factors.Rd man/WGCNA_modules.Rd man/addColorsMatrix.Rd man/addColorsMatrixResults.Rd man/affy2ensembl.Rd man/annotate_ensembl.Rd man/annotation_geo.Rd man/boxplot_element.Rd man/clusteringSummary.Rd man/colorNumericValues.Rd man/color_groups.Rd man/comparisonsPheno.Rd man/conditionsChoice.Rd man/design_contrasts.Rd man/export2cytoscape.Rd man/exprToBind.Rd man/fuzzy_clustering.Rd man/geneOntology.Rd man/get_comparisons.Rd man/get_names.Rd man/lm2Contrast.Rd man/meanMatrix.Rd man/modules_summary.Rd man/namesSelectedComparisons.Rd man/network.graphite.Rd man/numberNames.Rd man/order_list.Rd man/plotCorrectAttribution.Rd man/plotCorrectSubsample.Rd man/possibleComparisons.Rd man/reactions.Rd man/resultsByOntology.Rd man/results_summary.Rd man/results_topTable.Rd man/selectTopReaction.Rd man/signifRows.Rd man/transcript_count.Rd man/volcanoPlot.Rd man/wes.Rd methylAnalysis_functions.R packrat/init.R
packrat/packrat.lock
packrat/packrat.opts
packrat/src/AnnotationDbi/AnnotationDbi_1.30.1.tar.gz
packrat/src/AnnotationDbi/AnnotationDbi_1.32.3.tar.gz
packrat/src/AnnotationForge/AnnotationForge_1.10.1.tar.gz
packrat/src/BH/BH_1.60.0-1.tar.gz
packrat/src/Biobase/Biobase_2.28.0.tar.gz
packrat/src/Biobase/Biobase_2.30.0.tar.gz
packrat/src/BiocGenerics/BiocGenerics_0.14.0.tar.gz
packrat/src/BiocGenerics/BiocGenerics_0.16.1.tar.gz
packrat/src/BiocInstaller/BiocInstaller_1.20.1.tar.gz
packrat/src/Biostrings/Biostrings_2.36.4.tar.gz
packrat/src/Biostrings/Biostrings_2.38.3.tar.gz
packrat/src/Category/Category_2.34.2.tar.gz
packrat/src/DBI/DBI_0.3.1.tar.gz
packrat/src/DT/DT_0.1.tar.gz
packrat/src/DynDoc/DynDoc_1.46.0.tar.gz
packrat/src/DynDoc/DynDoc_1.48.0.tar.gz
packrat/src/Formula/Formula_1.2-1.tar.gz
packrat/src/GEOquery/GEOquery_2.34.0.tar.gz
packrat/src/GEOquery/GEOquery_2.36.0.tar.gz
packrat/src/GO.db/GO.db_3.1.2.tar.gz
packrat/src/GO.db/GO.db_3.2.2.tar.gz
packrat/src/GOstats/GOstats_2.34.0.tar.gz
packrat/src/GSEABase/GSEABase_1.30.2.tar.gz
packrat/src/GenomeInfoDb/GenomeInfoDb_1.4.3.tar.gz
packrat/src/Hmisc/Hmisc_3.17-1.tar.gz
packrat/src/IRanges/IRanges_2.2.9.tar.gz
packrat/src/IRanges/IRanges_2.4.6.tar.gz
packrat/src/KEGG.db/KEGG.db_3.1.2.tar.gz
packrat/src/KEGG.db/KEGG.db_3.2.2.tar.gz
packrat/src/KEGGREST/KEGGREST_1.10.1.tar.gz
packrat/src/KEGGREST/KEGGREST_1.8.1.tar.gz
packrat/src/KEGGgraph/KEGGgraph_1.26.0.tar.gz
packrat/src/KEGGgraph/KEGGgraph_1.28.0.tar.gz
packrat/src/KernSmooth/KernSmooth_2.23-15.tar.gz
packrat/src/MASS/MASS_7.3-45.tar.gz
packrat/src/Matrix/Matrix_1.2-3.tar.gz
packrat/src/Mfuzz/Mfuzz_2.28.0.tar.gz
packrat/src/Mfuzz/Mfuzz_2.30.0.tar.gz
packrat/src/R6/R6_2.1.1.tar.gz
packrat/src/RBGL/RBGL_1.44.0.tar.gz
packrat/src/RColorBrewer/RColorBrewer_1.1-2.tar.gz
packrat/src/RCurl/RCurl_1.95-4.7.tar.gz
packrat/src/RCytoscape/RCytoscape_1.18.0.tar.gz
packrat/src/RCytoscape/RCytoscape_1.20.0.tar.gz
packrat/src/RJSONIO/RJSONIO_1.3-0.tar.gz
packrat/src/RSQLite/RSQLite_1.0.0.tar.gz
packrat/src/Rcpp/Rcpp_0.12.3.tar.gz
packrat/src/Rgraphviz/Rgraphviz_2.12.0.tar.gz
packrat/src/Rgraphviz/Rgraphviz_2.14.0.tar.gz
packrat/src/S4Vectors/S4Vectors_0.6.6.tar.gz
packrat/src/S4Vectors/S4Vectors_0.8.7.tar.gz
packrat/src/SPIA/SPIA_2.20.0.tar.gz
packrat/src/SPIA/SPIA_2.22.0.tar.gz
packrat/src/WGCNA/WGCNA_1.49.tar.gz
packrat/src/XML/XML_3.98-1.3.tar.gz
packrat/src/XMLRPC/XMLRPC_0.3-0.tar.gz
packrat/src/XVector/XVector_0.10.0.tar.gz
packrat/src/XVector/XVector_0.8.0.tar.gz
packrat/src/a4Base/a4Base_1.16.0.tar.gz
packrat/src/a4Base/a4Base_1.18.0.tar.gz
packrat/src/a4Core/a4Core_1.16.0.tar.gz
packrat/src/a4Core/a4Core_1.18.0.tar.gz
packrat/src/a4Preproc/a4Preproc_1.16.0.tar.gz
packrat/src/a4Preproc/a4Preproc_1.18.0.tar.gz
packrat/src/acepack/acepack_1.3-3.3.tar.gz
packrat/src/annaffy/annaffy_1.40.0.tar.gz
packrat/src/annaffy/annaffy_1.42.0.tar.gz
packrat/src/annotate/annotate_1.46.1.tar.gz
packrat/src/annotate/annotate_1.48.0.tar.gz
packrat/src/bitops/bitops_1.0-6.tar.gz
packrat/src/brew/brew_1.0-6.tar.gz
packrat/src/caTools/caTools_1.17.1.tar.gz
packrat/src/cclust/cclust_0.6-20.tar.gz
packrat/src/class/class_7.3-14.tar.gz
packrat/src/cluster/cluster_2.0.3.tar.gz
packrat/src/codetools/codetools_0.2-14.tar.gz
packrat/src/colorspace/colorspace_1.2-6.tar.gz
packrat/src/curl/curl_0.9.4.tar.gz
packrat/src/devtools/devtools_1.9.1.tar.gz
packrat/src/dichromat/dichromat_2.0-0.tar.gz
packrat/src/digest/digest_0.6.9.tar.gz
packrat/src/doMC/doMC_1.3.4.tar.gz
packrat/src/doParallel/doParallel_1.0.10.tar.gz
packrat/src/dynamicTreeCut/dynamicTreeCut_1.62.tar.gz
packrat/src/e1071/e1071_1.6-7.tar.gz
packrat/src/evaluate/evaluate_0.8.tar.gz
packrat/src/fastcluster/fastcluster_1.1.16.tar.gz
packrat/src/foreach/foreach_1.4.3.tar.gz
packrat/src/foreign/foreign_0.8-66.tar.gz
packrat/src/gdata/gdata_2.17.0.tar.gz
packrat/src/genefilter/genefilter_1.50.0.tar.gz
packrat/src/genefilter/genefilter_1.52.0.tar.gz
packrat/src/ggplot2/ggplot2_2.0.0.tar.gz
packrat/src/git2r/git2r_0.13.1.tar.gz
packrat/src/glmnet/glmnet_2.0-2.tar.gz
packrat/src/gplots/gplots_2.17.0.tar.gz
packrat/src/graph/graph_1.46.0.tar.gz
packrat/src/graph/graph_1.48.0.tar.gz
packrat/src/graphite/graphite_1.14.1.tar.gz
packrat/src/graphite/graphite_1.16.0.tar.gz
packrat/src/gridExtra/gridExtra_2.0.0.tar.gz
packrat/src/gtable/gtable_0.1.2.tar.gz
packrat/src/gtools/gtools_3.5.0.tar.gz
packrat/src/htmltools/htmltools_0.3.tar.gz
packrat/src/htmlwidgets/htmlwidgets_0.5.tar.gz
packrat/src/httpuv/httpuv_1.3.3.tar.gz
packrat/src/httr/httr_1.0.0.tar.gz
packrat/src/impute/impute_1.42.0.tar.gz
packrat/src/impute/impute_1.44.0.tar.gz
packrat/src/iterators/iterators_1.0.8.tar.gz
packrat/src/jsonlite/jsonlite_0.9.19.tar.gz
packrat/src/labeling/labeling_0.3.tar.gz
packrat/src/lattice/lattice_0.20-33.tar.gz
packrat/src/latticeExtra/latticeExtra_0.6-26.tar.gz
packrat/src/limma/limma_3.24.15.tar.gz
packrat/src/limma/limma_3.26.5.tar.gz
packrat/src/magrittr/magrittr_1.5.tar.gz
packrat/src/matrixStats/matrixStats_0.50.1.tar.gz
packrat/src/memoise/memoise_0.2.1.tar.gz
packrat/src/mgcv/mgcv_1.8-10.tar.gz
packrat/src/mime/mime_0.4.tar.gz
packrat/src/mpm/mpm_1.0-22.tar.gz
packrat/src/multtest/multtest_2.24.0.tar.gz
packrat/src/multtest/multtest_2.26.0.tar.gz
packrat/src/munsell/munsell_0.4.2.tar.gz
packrat/src/network/network_1.13.0.tar.gz
packrat/src/nlme/nlme_3.1-122.tar.gz
packrat/src/nnet/nnet_7.3-11.tar.gz
packrat/src/org.Hs.eg.db/org.Hs.eg.db_3.1.2.tar.gz
packrat/src/org.Hs.eg.db/org.Hs.eg.db_3.2.3.tar.gz
packrat/src/org.Rn.eg.db/org.Rn.eg.db_3.1.2.tar.gz
packrat/src/org.Rn.eg.db/org.Rn.eg.db_3.2.3.tar.gz
packrat/src/packrat/packrat_0.4.6-1.tar.gz
packrat/src/pathview/pathview_1.10.1.tar.gz
packrat/src/pathview/pathview_1.8.0.tar.gz
packrat/src/permute/permute_0.8-4.tar.gz
packrat/src/plyr/plyr_1.8.3.tar.gz
packrat/src/png/png_0.1-7.tar.gz
packrat/src/preprocessCore/preprocessCore_1.30.0.tar.gz
packrat/src/preprocessCore/preprocessCore_1.32.0.tar.gz
packrat/src/rappdirs/rappdirs_0.3.tar.gz
packrat/src/reshape2/reshape2_1.4.1.tar.gz
packrat/src/roxygen2/roxygen2_5.0.1.tar.gz
packrat/src/rpart/rpart_4.1-10.tar.gz
packrat/src/rstudioapi/rstudioapi_0.4.0.tar.gz
packrat/src/rversions/rversions_1.0.2.tar.gz
packrat/src/scales/scales_0.3.0.tar.gz
packrat/src/shiny/shiny_0.13.0.tar.gz
packrat/src/stringi/stringi_1.0-1.tar.gz
packrat/src/stringr/stringr_1.0.0.tar.gz
packrat/src/survival/survival_2.38-3.tar.gz
packrat/src/tkWidgets/tkWidgets_1.46.0.tar.gz
packrat/src/tkWidgets/tkWidgets_1.48.0.tar.gz
packrat/src/vegan/vegan_2.3-2.tar.gz
packrat/src/vegan/vegan_2.3-3.tar.gz
packrat/src/wesanderson/wesanderson_0.3.2.tar.gz
packrat/src/whisker/whisker_0.3-2.tar.gz
packrat/src/widgetTools/widgetTools_1.46.0.tar.gz
packrat/src/widgetTools/widgetTools_1.48.0.tar.gz
packrat/src/xml2/xml2_0.1.2.tar.gz
packrat/src/xtable/xtable_1.8-0.tar.gz
packrat/src/yaml/yaml_2.1.13.tar.gz
packrat/src/zlibbioc/zlibbioc_1.14.0.tar.gz
packrat/src/zlibbioc/zlibbioc_1.16.0.tar.gz
powerTables.rds
rn5/rn5_annotation.txt
rnaseqApp.Rproj
rnaseq_analysis.Rproj
rnaseq_tutorial.R
rsconnect/shinyapps.io/simonpelletier/rnaseq_analysis.dcf
rsconnect/shinyapps.io/simonpelletier/rnaseq_app.dcf
server.R ui.R
spell098/rnaseq_app documentation built on May 26, 2017, 3:25 p.m.