.Rbuildignore
DESCRIPTION
NAMESPACE
R/EpivizBlockData-class.R
R/EpivizBpData-class.R
R/EpivizChart-class.R
R/EpivizData-class.R
R/EpivizDataCache-class.R
R/EpivizDevice-class.R
R/EpivizDeviceMgr-class.R
R/EpivizFeatureData-class.R
R/EpivizGeneInfoData-class.R
R/EpivizServer-class.R
R/EpivizTrackData-class.R
R/EpivizWigCache-class.R
R/EpivizWigData-class.R
R/makeGeneTrackAnnotation.R
R/middleware-plus-supporting.R
R/register-methods.R
R/startEpiviz.R
R/startStandalone.R
R/utils.r
R/zzz.R
README.md
data/datalist
data/tcga_colon_example.rda
data/tcga_colon_expression.rda
inst/NEWS.Rd
inst/tests/helper-makeEset.R
inst/tests/helper-organismdb.R
inst/tests/helper-setOptions.R
inst/tests/helper-startmgr.R
inst/tests/myhelpers.r
inst/tests/test-addCharts.R
inst/tests/test-addDevice.R
inst/tests/test-addMeasurements.R
inst/tests/test-browsing.r
inst/tests/test-coverage.r
inst/tests/test-creation.r
inst/tests/test-fetch.r
inst/tests/test-manageCharts.R
inst/tests/test-manageDevices.R
inst/tests/test-manageMeasurements.R
inst/tests/test-register.R
inst/tests/test-server.r
inst/tests/test-standalone.r
inst/tests/test-update.R
inst/tests/test-wigcache.r
inst/www-full/LICENSE
inst/www-full/README.md
inst/www-full/css/DataTables-1.9.4/media/css/demo_page.css
inst/www-full/css/DataTables-1.9.4/media/css/demo_table.css
inst/www-full/css/DataTables-1.9.4/media/css/demo_table_jui.css
inst/www-full/css/DataTables-1.9.4/media/css/jquery.dataTables.css
inst/www-full/css/DataTables-1.9.4/media/css/jquery.dataTables_themeroller.css
inst/www-full/css/DataTables-1.9.4/media/images/Sorting icons.psd
inst/www-full/css/DataTables-1.9.4/media/images/back_disabled.png
inst/www-full/css/DataTables-1.9.4/media/images/back_enabled.png
inst/www-full/css/DataTables-1.9.4/media/images/back_enabled_hover.png
inst/www-full/css/DataTables-1.9.4/media/images/favicon.ico
inst/www-full/css/DataTables-1.9.4/media/images/forward_disabled.png
inst/www-full/css/DataTables-1.9.4/media/images/forward_enabled.png
inst/www-full/css/DataTables-1.9.4/media/images/forward_enabled_hover.png
inst/www-full/css/DataTables-1.9.4/media/images/sort_asc.png
inst/www-full/css/DataTables-1.9.4/media/images/sort_asc_disabled.png
inst/www-full/css/DataTables-1.9.4/media/images/sort_both.png
inst/www-full/css/DataTables-1.9.4/media/images/sort_desc.png
inst/www-full/css/DataTables-1.9.4/media/images/sort_desc_disabled.png
inst/www-full/css/codemirror-4.5/lib/codemirror.css
inst/www-full/css/dropdown-check-list-1.4/css/ui.dropdownchecklist.standalone.css
inst/www-full/css/dropdown-check-list-1.4/css/ui.dropdownchecklist.themeroller.css
inst/www-full/css/dynatree1.2.4/GPL-LICENSE.txt
inst/www-full/css/dynatree1.2.4/MIT-License.txt
inst/www-full/css/dynatree1.2.4/skin-vista/icons.gif
inst/www-full/css/dynatree1.2.4/skin-vista/loading.gif
inst/www-full/css/dynatree1.2.4/skin-vista/ui.dynatree.css
inst/www-full/css/dynatree1.2.4/skin/icons-rtl.gif
inst/www-full/css/dynatree1.2.4/skin/icons.gif
inst/www-full/css/dynatree1.2.4/skin/loading.gif
inst/www-full/css/dynatree1.2.4/skin/ui.dynatree.css
inst/www-full/css/dynatree1.2.4/skin/vline-rtl.gif
inst/www-full/css/dynatree1.2.4/skin/vline.gif
inst/www-full/css/epiviz_1_icon.png
inst/www-full/css/epiviz_2_icon.png
inst/www-full/css/farbtastic-color-picker/LICENSE.txt
inst/www-full/css/farbtastic-color-picker/farbtastic.css
inst/www-full/css/farbtastic-color-picker/marker.png
inst/www-full/css/farbtastic-color-picker/mask.png
inst/www-full/css/farbtastic-color-picker/wheel.png
inst/www-full/css/icomoon/epiviz-icons.css
inst/www-full/css/icomoon/fonts/epiviz-icons.eot
inst/www-full/css/icomoon/fonts/epiviz-icons.svg
inst/www-full/css/icomoon/fonts/epiviz-icons.ttf
inst/www-full/css/icomoon/fonts/epiviz-icons.woff
inst/www-full/css/main.css
inst/www-full/css/qtip/jquery.qtip.css
inst/www-full/css/qtip/jquery.qtip.min.css
inst/www-full/css/svg.css
inst/www-full/css/theme/images/ui-anim_basic_16x16.gif
inst/www-full/css/theme/images/ui-bg_flat_0_aaaaaa_40x100.png
inst/www-full/css/theme/images/ui-bg_flat_75_ffffff_40x100.png
inst/www-full/css/theme/images/ui-bg_glass_55_fbf9ee_1x400.png
inst/www-full/css/theme/images/ui-bg_glass_65_ffffff_1x400.png
inst/www-full/css/theme/images/ui-bg_glass_75_dadada_1x400.png
inst/www-full/css/theme/images/ui-bg_glass_75_e6e6e6_1x400.png
inst/www-full/css/theme/images/ui-bg_glass_95_fef1ec_1x400.png
inst/www-full/css/theme/images/ui-bg_highlight-soft_50_dddddd_1x100.png
inst/www-full/css/theme/images/ui-bg_highlight-soft_75_cccccc_1x100.png
inst/www-full/css/theme/images/ui-icons_222222_256x240.png
inst/www-full/css/theme/images/ui-icons_2e83ff_256x240.png
inst/www-full/css/theme/images/ui-icons_454545_256x240.png
inst/www-full/css/theme/images/ui-icons_888888_256x240.png
inst/www-full/css/theme/images/ui-icons_cd0a0a_256x240.png
inst/www-full/css/theme/jquery-ui-1.8.9.custom.css
inst/www-full/css/theme/jquery.ui.selectmenu.css
inst/www-full/css/theme/ui.multiselect.css
inst/www-full/css/theme/ui.panel.css
inst/www-full/image_sources/03957_BauhausLightBT.ttf
inst/www-full/image_sources/03958_BauhausMediumBT.ttf
inst/www-full/image_sources/epiviz_2_icon.psd
inst/www-full/image_sources/epiviz_2_logo_2.psd
inst/www-full/image_sources/epiviz_2_logo_e_icon.png
inst/www-full/image_sources/epiviz_2_logo_e_icon.psd
inst/www-full/image_sources/epiviz_2_logo_e_icon_blue.psd
inst/www-full/image_sources/epiviz_2_logo_e_icon_blue_small.png
inst/www-full/image_sources/epiviz_2_logo_e_icon_blue_small.psd
inst/www-full/image_sources/epiviz_2_logo_e_icon_white_bg.png
inst/www-full/image_sources/epiviz_2_logo_large.psd
inst/www-full/image_sources/epiviz_2_logo_large_black_bg.png
inst/www-full/image_sources/epiviz_2_logo_large_black_bg.psd
inst/www-full/image_sources/epiviz_2_logo_large_black_bg_transp.png
inst/www-full/image_sources/epiviz_2_logo_large_white_bg.png
inst/www-full/image_sources/epiviz_2_logo_large_white_bg.psd
inst/www-full/image_sources/epiviz_2_logo_large_white_bg_transp.png
inst/www-full/image_sources/epiviz_2_logo_medium_2_black_bg.png
inst/www-full/image_sources/epiviz_2_logo_medium_2_black_bg.psd
inst/www-full/image_sources/epiviz_2_logo_medium_2_black_bg_transp.png
inst/www-full/image_sources/epiviz_2_logo_medium_2_no_bg.png
inst/www-full/image_sources/epiviz_2_logo_medium_2_transp.png
inst/www-full/image_sources/epiviz_2_logo_medium_2_white_bg.png
inst/www-full/image_sources/epiviz_2_logo_medium_2_white_bg.psd
inst/www-full/image_sources/epiviz_2_logo_medium_2_white_bg_transp.png
inst/www-full/image_sources/epiviz_2_logo_small_3_black_bg.png
inst/www-full/image_sources/epiviz_2_logo_small_3_black_bg.psd
inst/www-full/image_sources/epiviz_2_logo_small_3_black_bg_transp.png
inst/www-full/image_sources/epiviz_2_logo_small_3_no_bg.png
inst/www-full/image_sources/epiviz_2_logo_small_3_white_bg.png
inst/www-full/image_sources/epiviz_2_logo_small_3_white_bg.psd
inst/www-full/image_sources/epiviz_2_logo_small_3_white_bg_transp.png
inst/www-full/image_sources/epiviz_3_logo.psd
inst/www-full/image_sources/epiviz_3_logo_large.psd
inst/www-full/image_sources/epiviz_3_logo_large_black_bg.png
inst/www-full/image_sources/epiviz_3_logo_large_black_bg.psd
inst/www-full/image_sources/epiviz_3_logo_large_white_bg.png
inst/www-full/image_sources/epiviz_3_logo_large_white_bg.psd
inst/www-full/image_sources/epiviz_3_logo_medium_white_bg.psd
inst/www-full/image_sources/epiviz_icon.png
inst/www-full/image_sources/epiviz_logo.psd
inst/www-full/image_sources/epiviz_logo_2.psd
inst/www-full/image_sources/epiviz_logo_medium.psd
inst/www-full/image_sources/epiviz_logo_small.psd
inst/www-full/image_sources/epiviz_logo_v1.png
inst/www-full/image_sources/epiviz_logo_v2.png
inst/www-full/image_sources/epiviz_logo_v3.png
inst/www-full/image_sources/epiviz_logo_v9.png
inst/www-full/image_sources/scatter_plot_icon.psd
inst/www-full/image_sources/scatter_plot_icon_small.psd
inst/www-full/image_sources/track_icon.psd
inst/www-full/image_sources/ui-icons_222222_256x240.png
inst/www-full/image_sources/ui-icons_222222_256x240.psd
inst/www-full/image_sources/ui-icons_2e83ff_256x240.png
inst/www-full/image_sources/ui-icons_2e83ff_256x240.psd
inst/www-full/image_sources/ui-icons_454545_256x240.png
inst/www-full/image_sources/ui-icons_454545_256x240.psd
inst/www-full/image_sources/ui-icons_888888_256x240.png
inst/www-full/image_sources/ui-icons_888888_256x240.psd
inst/www-full/img/epiviz_2_gravatar.png
inst/www-full/img/epiviz_2_logo_medium.png
inst/www-full/img/epiviz_3_logo_medium.png
inst/www-full/img/facebooklogin.png
inst/www-full/img/twitterlogin.png
inst/www-full/index-standalone.html
inst/www-full/index.php
inst/www-full/raw.php
inst/www-full/src/epiviz-test/main.js
inst/www-full/src/epiviz-test/performance/epiviz-settings.js
inst/www-full/src/epiviz-test/performance/testcases/blocks-track-test-suite.js
inst/www-full/src/epiviz-test/performance/testcases/heatmap-plot-test-suite.js
inst/www-full/src/epiviz-test/performance/testcases/line-track-test-suite.js
inst/www-full/src/epiviz-test/performance/testcases/scatter-plot-test-suite.js
inst/www-full/src/epiviz-test/test-manager.js
inst/www-full/src/epiviz-test/test-suite.js
inst/www-full/src/epiviz-test/test.php
inst/www-full/src/epiviz/caja/caja.js
inst/www-full/src/epiviz/config.js
inst/www-full/src/epiviz/data/cache.js
inst/www-full/src/epiviz/data/data-manager.js
inst/www-full/src/epiviz/data/data-provider-factory.js
inst/www-full/src/epiviz/data/data-provider.js
inst/www-full/src/epiviz/data/empty-response-data-provider.js
inst/www-full/src/epiviz/data/message-type.js
inst/www-full/src/epiviz/data/mock-data-provider.js
inst/www-full/src/epiviz/data/request-stack.js
inst/www-full/src/epiviz/data/request.js
inst/www-full/src/epiviz/data/response.js
inst/www-full/src/epiviz/data/webserver-data-provider.js
inst/www-full/src/epiviz/data/websocket-data-provider.js
inst/www-full/src/epiviz/datatypes/deprecated/genomic-data.js
inst/www-full/src/epiviz/datatypes/deprecated/genomic-ranges.js
inst/www-full/src/epiviz/datatypes/deprecated/seqinfo.js
inst/www-full/src/epiviz/datatypes/feature-value-array.js
inst/www-full/src/epiviz/datatypes/genomic-array.js
inst/www-full/src/epiviz/datatypes/genomic-data.js
inst/www-full/src/epiviz/datatypes/genomic-range-array.js
inst/www-full/src/epiviz/datatypes/genomic-range.js
inst/www-full/src/epiviz/datatypes/item-filtered-genomic-data.js
inst/www-full/src/epiviz/datatypes/map-genomic-data.js
inst/www-full/src/epiviz/datatypes/measurement-aggregated-genomic-data.js
inst/www-full/src/epiviz/datatypes/measurement-genomic-data-array-wrapper.js
inst/www-full/src/epiviz/datatypes/measurement-genomic-data-wrapper.js
inst/www-full/src/epiviz/datatypes/measurement-genomic-data.js
inst/www-full/src/epiviz/datatypes/measurement-ordered-genomic-data.js
inst/www-full/src/epiviz/datatypes/partial-summarized-experiment.js
inst/www-full/src/epiviz/datatypes/range.js
inst/www-full/src/epiviz/datatypes/row-item-impl.js
inst/www-full/src/epiviz/datatypes/seq-info.js
inst/www-full/src/epiviz/default-settings.js
inst/www-full/src/epiviz/deferred/deferred.js
inst/www-full/src/epiviz/deferred/promise.js
inst/www-full/src/epiviz/epiviz.js
inst/www-full/src/epiviz/events/event-listener.js
inst/www-full/src/epiviz/events/event-result.js
inst/www-full/src/epiviz/events/event.js
inst/www-full/src/epiviz/localstorage/local-storage-manager.js
inst/www-full/src/epiviz/main.js
inst/www-full/src/epiviz/measurements/measurement-hashtable.js
inst/www-full/src/epiviz/measurements/measurement-set.js
inst/www-full/src/epiviz/measurements/measurement.js
inst/www-full/src/epiviz/measurements/measurements-manager.js
inst/www-full/src/epiviz/plugins/charts/blocks-track-type.js
inst/www-full/src/epiviz/plugins/charts/blocks-track.js
inst/www-full/src/epiviz/plugins/charts/genes-track-type.js
inst/www-full/src/epiviz/plugins/charts/genes-track.js
inst/www-full/src/epiviz/plugins/charts/heatmap-plot-type.js
inst/www-full/src/epiviz/plugins/charts/heatmap-plot.js
inst/www-full/src/epiviz/plugins/charts/line-plot-type.js
inst/www-full/src/epiviz/plugins/charts/line-plot.js
inst/www-full/src/epiviz/plugins/charts/line-track-type.js
inst/www-full/src/epiviz/plugins/charts/line-track.js
inst/www-full/src/epiviz/plugins/charts/scatter-plot-type.js
inst/www-full/src/epiviz/plugins/charts/scatter-plot.js
inst/www-full/src/epiviz/plugins/charts/stacked-line-plot-type.js
inst/www-full/src/epiviz/plugins/charts/stacked-line-plot.js
inst/www-full/src/epiviz/plugins/charts/stacked-line-track-type.js
inst/www-full/src/epiviz/plugins/charts/stacked-line-track.js
inst/www-full/src/epiviz/standalone-settings.js
inst/www-full/src/epiviz/ui/charts/axis.js
inst/www-full/src/epiviz/ui/charts/chart-factory.js
inst/www-full/src/epiviz/ui/charts/chart-manager.js
inst/www-full/src/epiviz/ui/charts/chart-object.js
inst/www-full/src/epiviz/ui/charts/chart-type.js
inst/www-full/src/epiviz/ui/charts/chart.js
inst/www-full/src/epiviz/ui/charts/color-palette.js
inst/www-full/src/epiviz/ui/charts/custom-setting.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-color-by-measurements-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-color-by-row-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-colors-button.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-filter-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-group-by-measurements-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-loader-animation.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-option-button.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-order-by-measurements-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-resize.js
inst/www-full/src/epiviz/ui/charts/decoration/chart-tooltip.js
inst/www-full/src/epiviz/ui/charts/decoration/code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/custom-settings-button.js
inst/www-full/src/epiviz/ui/charts/decoration/edit-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/hierarchy-filter-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/marker-code-button.js
inst/www-full/src/epiviz/ui/charts/decoration/remove-chart-button.js
inst/www-full/src/epiviz/ui/charts/decoration/save-chart-button.js
inst/www-full/src/epiviz/ui/charts/decoration/toggle-tooltip-button.js
inst/www-full/src/epiviz/ui/charts/decoration/visualization-decoration.js
inst/www-full/src/epiviz/ui/charts/display-type.js
inst/www-full/src/epiviz/ui/charts/margins.js
inst/www-full/src/epiviz/ui/charts/markers/measurement-aggregator.js
inst/www-full/src/epiviz/ui/charts/markers/visualization-marker.js
inst/www-full/src/epiviz/ui/charts/plot-type.js
inst/www-full/src/epiviz/ui/charts/plot.js
inst/www-full/src/epiviz/ui/charts/track-type.js
inst/www-full/src/epiviz/ui/charts/track.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/agglomerative-clustering.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/cluster-leaf.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/cluster-node.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/cluster-subtree.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/cluster-tree.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/clustering-algorithm-factory.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/clustering-linkage.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/clustering-metric.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/complete-linkage.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/euclidean-metric.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/hierarchical-clustering-algorithm.js
inst/www-full/src/epiviz/ui/charts/transform/clustering/none-clustering.js
inst/www-full/src/epiviz/ui/charts/vis-event-args.js
inst/www-full/src/epiviz/ui/charts/vis-object.js
inst/www-full/src/epiviz/ui/charts/visualization-properties.js
inst/www-full/src/epiviz/ui/charts/visualization-type.js
inst/www-full/src/epiviz/ui/charts/visualization.js
inst/www-full/src/epiviz/ui/control-manager.js
inst/www-full/src/epiviz/ui/controls/code-control.js
inst/www-full/src/epiviz/ui/controls/code-dialog.js
inst/www-full/src/epiviz/ui/controls/color-picker-dialog.js
inst/www-full/src/epiviz/ui/controls/computed-measurements-dialog.js
inst/www-full/src/epiviz/ui/controls/control.js
inst/www-full/src/epiviz/ui/controls/custom-settings-dialog.js
inst/www-full/src/epiviz/ui/controls/data-table.js
inst/www-full/src/epiviz/ui/controls/datasource-group-wizard-step.js
inst/www-full/src/epiviz/ui/controls/dialog.js
inst/www-full/src/epiviz/ui/controls/edit-code-control.js
inst/www-full/src/epiviz/ui/controls/marker-code-control.js
inst/www-full/src/epiviz/ui/controls/measurements-wizard-step.js
inst/www-full/src/epiviz/ui/controls/message-dialog.js
inst/www-full/src/epiviz/ui/controls/save-svg-as-image-dialog.js
inst/www-full/src/epiviz/ui/controls/vis-config-selection.js
inst/www-full/src/epiviz/ui/controls/wizard.js
inst/www-full/src/epiviz/ui/location-manager.js
inst/www-full/src/epiviz/ui/web-args-manager.js
inst/www-full/src/epiviz/utils/expression-parser-doc.htm
inst/www-full/src/epiviz/utils/expression-parser.js
inst/www-full/src/epiviz/utils/iterable-array.js
inst/www-full/src/epiviz/utils/iterable.js
inst/www-full/src/epiviz/utils/iterator.js
inst/www-full/src/epiviz/utils/utils.js
inst/www-full/src/epiviz/workspaces/user-manager.js
inst/www-full/src/epiviz/workspaces/workspace-manager.js
inst/www-full/src/epiviz/workspaces/workspace.js
inst/www-full/src/lib/caja/caja.js
inst/www-full/src/lib/closure/goog/base.js
inst/www-full/src/lib/closure/goog/deps.js
inst/www-full/src/lib/closure/goog/structs/avltree.js
inst/www-full/src/lib/closure/goog/structs/collection.js
inst/www-full/src/lib/closure/goog/structs/intervaltree.js
inst/www-full/src/lib/codemirror-4.5/addon/comment/comment.js
inst/www-full/src/lib/codemirror-4.5/addon/comment/continuecomment.js
inst/www-full/src/lib/codemirror-4.5/addon/edit/matchbrackets.js
inst/www-full/src/lib/codemirror-4.5/lib/codemirror.js
inst/www-full/src/lib/codemirror-4.5/mode/javascript/javascript.js
inst/www-full/src/lib/d3/d3.v2.js
inst/www-full/src/lib/d3/d3.v3.js
inst/www-full/src/lib/d3/d3.v3.min.js
inst/www-full/src/lib/expression-parser/expression-parser-doc.htm
inst/www-full/src/lib/expression-parser/parser.js
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inst/www/img/epiviz_3_logo_medium.png
inst/www/index-standalone.html
inst/www/index.php
inst/www/minifier.jar
inst/www/src/epiviz/default-settings.js
inst/www/src/epiviz/standalone-settings.js
man/EpivizBlockData-class.Rd
man/EpivizBpData-class.Rd
man/EpivizChart-class.Rd
man/EpivizData-class.Rd
man/EpivizDataCache-class.Rd
man/EpivizDevice-class.Rd
man/EpivizDeviceMgr-class.Rd
man/EpivizFeatureData-class.Rd
man/EpivizGeneInfoData-class.Rd
man/EpivizServer-class.Rd
man/EpivizTrackDevice-class.Rd
man/EpivizWigCache-class.Rd
man/EpivizWigData-class.Rd
man/IndexedArray-class.Rd
man/Queue-class.Rd
man/makeGeneTrackAnnotation.Rd
man/register-methods.Rd
man/startEpiviz.Rd
man/startStandalone.Rd
man/tcga_colon_example.Rd
man/tcga_colon_expression.Rd
vignettes/IntroToEpivizr.Rmd
vignettes/Makefile