.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/metaboliteset.enrichment.R
R/plot.msea.R
R/read.gmt.R
R/read.gpml.R
README.md
appveyor.yml
binder.PNG
docs/LICENSE-text.html
docs/articles/index.html
docs/articles/vignette.html
docs/articles/vignette_files/figure-html/unnamed-chunk-1-1.png
docs/articles/vignette_files/figure-html/unnamed-chunk-10-1.png
docs/articles/vignette_files/figure-html/unnamed-chunk-10-2.png
docs/articles/vignette_files/figure-html/unnamed-chunk-9-1.png
docs/articles/vignette_files/htmlwidgets-1.2/htmlwidgets.js
docs/articles/vignette_files/vis-4.20.1/img/network/acceptDeleteIcon.png
docs/articles/vignette_files/vis-4.20.1/img/network/addNodeIcon.png
docs/articles/vignette_files/vis-4.20.1/img/network/backIcon.png
docs/articles/vignette_files/vis-4.20.1/img/network/connectIcon.png
docs/articles/vignette_files/vis-4.20.1/img/network/cross.png
docs/articles/vignette_files/vis-4.20.1/img/network/cross2.png
docs/articles/vignette_files/vis-4.20.1/img/network/deleteIcon.png
docs/articles/vignette_files/vis-4.20.1/img/network/downArrow.png
docs/articles/vignette_files/vis-4.20.1/img/network/editIcon.png
docs/articles/vignette_files/vis-4.20.1/img/network/leftArrow.png
docs/articles/vignette_files/vis-4.20.1/img/network/minus.png
docs/articles/vignette_files/vis-4.20.1/img/network/plus.png
docs/articles/vignette_files/vis-4.20.1/img/network/rightArrow.png
docs/articles/vignette_files/vis-4.20.1/img/network/upArrow.png
docs/articles/vignette_files/vis-4.20.1/img/network/zoomExtends.png
docs/articles/vignette_files/vis-4.20.1/vis.css
docs/articles/vignette_files/vis-4.20.1/vis.min.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/css/dataManipulation.css
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/Blob/Blob.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/Blob/LICENSE.md
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/Blob/README.md
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/FileSaver/FileSaver.min.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/FileSaver/LICENSE.md
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/FileSaver/README.md
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/canvas-toBlob/LICENSE.md
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/canvas-toBlob/README.md
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/canvas-toBlob/canvas-toBlob.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/html2canvas/html2canvas.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/export/jsPDF/jspdf.debug.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/HELP-US-OUT.txt
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/css/font-awesome.min.css
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/fonts/FontAwesome.otf
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/fonts/fontawesome-webfont.eot
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/fonts/fontawesome-webfont.svg
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/fonts/fontawesome-webfont.ttf
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/fonts/fontawesome-webfont.woff
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/fonts/fontawesome-webfont.woff2
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/animated.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/bordered-pulled.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/core.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/fixed-width.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/font-awesome.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/icons.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/larger.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/list.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/mixins.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/path.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/rotated-flipped.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/stacked.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/less/variables.less
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_animated.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_bordered-pulled.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_core.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_fixed-width.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_icons.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_larger.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_list.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_mixins.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_path.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_rotated-flipped.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_stacked.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/_variables.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/font-awesome/scss/font-awesome.scss
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/ionicons/LICENSE
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/ionicons/css/ionicons.min.css
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/ionicons/fonts/ionicons.eot
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/ionicons/fonts/ionicons.svg
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/ionicons/fonts/ionicons.ttf
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/ionicons/fonts/ionicons.woff
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/acceptDeleteIcon.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/addNodeIcon.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/backIcon.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/connectIcon.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/cross.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/cross2.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/deleteIcon.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/downArrow.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/editIcon.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/leftArrow.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/minus.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/plus.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/rightArrow.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/upArrow.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/img/network/zoomExtends.png
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/vis.css
docs/articles/vignette_files/visNetwork-binding-2.0.3/lib/vis/vis.min.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/visNetwork.js
docs/articles/vignette_files/visNetwork-binding-2.0.3/visNetwork.yaml
docs/authors.html
docs/docsearch.css
docs/index.html
docs/jquery.sticky-kit.min.js
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/barplot-1.png
docs/reference/barplot.html
docs/reference/dotplot-1.png
docs/reference/dotplot.html
docs/reference/fukushima17_INC.html
docs/reference/index.html
docs/reference/kgml.import.html
docs/reference/kusano.html
docs/reference/msea.example.html
docs/reference/msea.html
docs/reference/mset10hmdb.html
docs/reference/mset_AraCyc_format_HMDB.html
docs/reference/mset_AraCyc_format_KEGG.html
docs/reference/mset_AtMetExpress_Flavonoids_format_KNApSAcK.html
docs/reference/mset_AtMetExpress_Stress_format_KEGG.html
docs/reference/mset_EcoCyc_format_HMDB.html
docs/reference/mset_EcoCyc_format_KEGG.html
docs/reference/mset_FlyCyc_format_KEGG.html
docs/reference/mset_HumanCyc_format_KEGG.html
docs/reference/mset_MetaCyc_format_HMDB.html
docs/reference/mset_MetaCyc_format_KEGG.html
docs/reference/mset_MouseCyc_format_KEGG.html
docs/reference/mset_PlantCyc_format_HMDB.html
docs/reference/mset_PlantCyc_format_KEGG.html
docs/reference/mset_SMPDB_Metabolic_format_HMDB.html
docs/reference/mset_SMPDB_format_HMDB.html
docs/reference/mset_SMPDB_format_KEGG.html
docs/reference/netplot.html
docs/reference/read.gmt.html
docs/reference/read.wikipathways.html
docs/reference/setup.KEGG.gmt.html
docs/reference/setupPathwayClass.html
docs/reference/supported.msets.html
inst/extdata/At_AtMetExpress_overview_WP3622_89229.gpml
inst/extdata/WP3620_95486.owl
inst/extdata/kusano_CPD.txt
inst/extdata/sample_SMPDB.gmt
inst/shiny/app.R
man/barplot.Rd
man/dotplot.Rd
man/msea.Rd
man/netplot.Rd
man/read.gmt.Rd
man/read.gpml.Rd
tests/figs/deps.txt
tests/figs/mseap-plots/msea-dotplot.svg
tests/figs/mseap-plots/msea-plot.svg
tests/testthat.R
tests/testthat/result.rda
tests/testthat/test-functions.R
tests/testthat/test-plot.R
vignettes/MSEAp.Rmd