Files in frankkramer-lab/RCX
R package implementing the Cytoscape Exchange (CX) format
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS.md
R/AspectDependencies.R
R/Igraph.R
R/Json-fromJson.R
R/Json-toJson.R
R/Print.R
R/RCX-CartesianLayout.R
R/RCX-Cytoscape-Groups.R
R/RCX-Cytoscape-HiddenAttributes.R
R/RCX-Cytoscape-NetworkRelations.R
R/RCX-Cytoscape-SubNetworks.R
R/RCX-Cytoscape-TableColumns.R
R/RCX-Cytoscape-VisualProperties.R
R/RCX-MetaData.R
R/RCX-NodeEdgeNetworkAttributes.R
R/RCX-NodesAndEdges.R
R/RCX.R
R/Summary.R
R/Utils-checks.R
R/Utils-error-handling.R
R/Utils-general.R
R/Utils-json.R
R/Utils-validation.R
R/Validate.R
R/Visualize.R
R/graphNEL.R
R/sysdata.rda
R/zzz.R
README.md
data-raw/Defaults.R
data-raw/html/index.part1.html
data-raw/html/index.part2.html
data-raw/html/index.part3.html
inst/extdata/Direct-p53-effectors-67c3b75d-6191-11e5-8ac5-06603eb7f303.cx
inst/extdata/Imatinib-Inhibition-of-BCR-ABL-66a902f5-2022-11e9-bb6a-0ac135e8bacf.cx
inst/extdata/RCX_Data_Structure.cx
inst/extdata/WP3633-d1663a2f-56bc-11eb-9e72-0ac135e8bacf.cx
inst/script/Imatinib-Inhibition-of-BCR-ABL-66a902f5-2022-11e9-bb6a-0ac135e8bacf.sh
inst/script/RCX_Data_Structure.sh
inst/script/WP3633-d1663a2f-56bc-11eb-9e72-0ac135e8bacf.sh
man-roxygen-examples/CX_load.R
man-roxygen-examples/CX_save.R
man-roxygen-examples/RCXconversionNGraph.R
man-roxygen-examples/RCXconversionRCXgraph.R
man-roxygen-examples/cartesian-layout-create.R
man-roxygen-examples/cartesian-layout-update.R
man-roxygen-examples/cy-groups-create.R
man-roxygen-examples/cy-groups-update.R
man-roxygen-examples/cy-hidden-attributes-create.R
man-roxygen-examples/cy-hidden-attributes-update.R
man-roxygen-examples/cy-network-relations-create.R
man-roxygen-examples/cy-network-relations-update.R
man-roxygen-examples/cy-subnetworks-create.R
man-roxygen-examples/cy-subnetworks-update.R
man-roxygen-examples/cy-table-column-create.R
man-roxygen-examples/cy-table-column-update.R
man-roxygen-examples/cy-visual-properties-create.R
man-roxygen-examples/cy-visual-properties-update.R
man-roxygen-examples/cy-visual-property-create.R
man-roxygen-examples/cy-visual-property-dependencies-create.R
man-roxygen-examples/cy-visual-property-get.R
man-roxygen-examples/cy-visual-property-mappings-create.R
man-roxygen-examples/cy-visual-property-properties-create.R
man-roxygen-examples/cy-visual-property-update.R
man-roxygen-examples/edgeAttributes-create.R
man-roxygen-examples/edgeAttributes-update.R
man-roxygen-examples/edges-create.R
man-roxygen-examples/edges-update.R
man-roxygen-examples/graphNEL.R
man-roxygen-examples/igraph.R
man-roxygen-examples/meta-data-properties-update.R
man-roxygen-examples/meta-data-update.R
man-roxygen-examples/networkAttributes-create.R
man-roxygen-examples/networkAttributes-update.R
man-roxygen-examples/nodeAttributes-create.R
man-roxygen-examples/nodeAttributes-update.R
man-roxygen-examples/nodes-create.R
man-roxygen-examples/nodes-update.R
man-roxygen-examples/rcx-create.R
man-roxygen-examples/validate.R
man-roxygen/RCXconversionRCXgraph.R
man-roxygen/RCXgraph.R
man-roxygen/RCXgraphConversionRCX.R
man-roxygen/cy-visual-properties-description.R
man-roxygen/cy-visual-properties-property-adding.R
man-roxygen/cy-visual-properties-structure-full.R
man-roxygen/cy-visual-properties-structure.R
man-roxygen/cy-visual-property-structure.R
man-roxygen/nodes.R
man/CartesianLayout.Rd
man/Convert-Names-and-Classes.Rd
man/CyGroups.Rd
man/CyHiddenAttributes.Rd
man/CyNetworkRelations.Rd
man/CySubNetworks.Rd
man/CyTableColumn.Rd
man/CyVisualProperties.Rd
man/CyVisualProperty.Rd
man/CyVisualPropertyDependencies.Rd
man/CyVisualPropertyMappings.Rd
man/CyVisualPropertyProperties.Rd
man/EdgeAttributes.Rd
man/Edges.Rd
man/Igraph.Rd
man/Meta-data.Rd
man/NetworkAttributes.Rd
man/NodeAttributes.Rd
man/Nodes.Rd
man/RCX-object.Rd
man/RCX.Rd
man/aspectClasses.Rd
man/checks.Rd
man/convert-data-types-and-values.Rd
man/convert2json.Rd
man/countElements.Rd
man/custom-print.Rd
man/dot-addAspectNameToJson.Rd
man/dot-addAttributeData.Rd
man/dot-aspectClass.Rd
man/dot-convertRawList.Rd
man/dot-createAttributeAspect.Rd
man/dot-createCyVpPorD.Rd
man/dot-errorCodes.Rd
man/dot-filterBy.Rd
man/dot-format.Rd
man/dot-infer.Rd
man/dot-json2RDataType.Rd
man/dot-jsonL.Rd
man/dot-jsonV.Rd
man/dot-log.Rd
man/dot-mergeAttributesAspect.Rd
man/dot-mergeIdAspect.Rd
man/dot-modClass.Rd
man/dot-pasteC.Rd
man/dot-renameDF.Rd
man/dot-stop.Rd
man/dot-summaryAspect.Rd
man/dot-transformListLength-set.Rd
man/dot-transformVLD.Rd
man/dot-validateAttributesAspect.Rd
man/dot-validateCyVisualPropertyPandD.Rd
man/dot_test.Rd
man/getCyVisualProperty.Rd
man/graphNEL.Rd
man/hasIds.Rd
man/idProperty.Rd
man/jsonToRCX.Rd
man/markAttributeColumn.Rd
man/markRefColumn.Rd
man/maxId.Rd
man/rcxToJson.Rd
man/readCX.Rd
man/referredBy.Rd
man/refersTo.Rd
man/setExtension.Rd
man/summary.Rd
man/toCX.Rd
man/updateCartesianLayout.Rd
man/updateCyGroups.Rd
man/updateCyHiddenAttributes.Rd
man/updateCyNetworkRelations.Rd
man/updateCySubNetworks.Rd
man/updateCyTableColumn.Rd
man/updateCyVisualProperties.Rd
man/updateCyVisualProperty.Rd
man/updateEdgeAttributes.Rd
man/updateEdges.Rd
man/updateMetaDataProperties.Rd
man/updateNetworkAttributes.Rd
man/updateNodeAttributes.Rd
man/updateNodes.Rd
man/validate.Rd
man/visualize.Rd
man/writeCX.Rd
man/writeHTML.Rd
tests/testthat.R
tests/testthat/test_01_rcx_model.r
vignettes/1_network_cose_with_label.png
vignettes/1_network_no_cvp.png
vignettes/1_network_orig.png
vignettes/Appendix_The_RCX_and_CX_Data_Model.Rmd
vignettes/Creating_RCX_from_scratch.Rmd
vignettes/Extending_the_RCX_Data_Model.Rmd
vignettes/RCX_Data_Structure.png
vignettes/RCX_Data_Structure_Legend.png
vignettes/RCX_Data_Structure_on_NDEx.png
vignettes/RCX_an_R_package_implementing_the_Cytoscape_Exchange_format.Rmd
vignettes/cytoscape-logo.png
vignettes/ndexedit_logo.png
vignettes/network_cose.png
vignettes/network_description_ndex.png
vignettes/network_with_coordinates.png
