Package: ndexr 1.34.0

Florian Auer

ndexr: NDEx R client library

This package offers an interface to NDEx servers, e.g. the public server at http://ndexbio.org/. It can retrieve and save networks via the API. Networks are offered as RCX object and as igraph representation.

Authors:Florian Auer [cre, aut], Frank Kramer [ctb], Alex Ishkin [ctb], Dexter Pratt [ctb]

ndexr_1.34.0.tar.gz
ndexr_1.34.0.zip(r-4.7)ndexr_1.34.0.zip(r-4.6)ndexr_1.34.0.zip(r-4.5)
ndexr_1.34.0.tgz(r-4.6-any)ndexr_1.34.0.tgz(r-4.5-any)
ndexr_1.34.0.tar.gz(r-4.7-any)ndexr_1.34.0.tar.gz(r-4.6-any)
ndexr_1.34.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
ndexr/json (API)
NEWS

# Install 'ndexr' in R:
install.packages('ndexr', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/frankkramer-lab/ndexr/issues

On BioConductor:ndexr-1.35.0(bioc 3.24)ndexr-1.34.0(bioc 3.23)

pathwaysdataimportnetwork

6.51 score 9 stars 45 scripts 384 downloads 44 exports 33 dependencies

Last updated from:00704c8bf1 (on RELEASE_3_23). Checks:1 WARNING, 7 ERROR, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING159
linux-devel-x86_64ERROR181
source / vignettesOK196
linux-release-x86_64ERROR198
macos-release-arm64ERROR121
macos-oldrel-arm64ERROR112
windows-develERROR102
windows-releaseERROR93
windows-oldrelERROR106
wasm-releaseOK110

Exports:ndex_configndex_connectndex_create_groupndex_create_networkndex_create_userndex_delete_groupndex_delete_networkndex_delete_userndex_find_groupsndex_find_networksndex_find_user_byIdndex_find_user_byNamendex_find_usersndex_get_groupndex_get_networkndex_group_delete_membershipndex_group_list_networksndex_group_list_usersndex_group_network_get_permissionndex_group_set_membershipndex_network_aspect_get_metadatandex_network_delete_permissionndex_network_get_aspectndex_network_get_metadatandex_network_get_permissionndex_network_get_provenancendex_network_get_summaryndex_network_set_systemPropertiesndex_network_update_aspectndex_network_update_permissionndex_network_update_profilendex_update_groupndex_update_networkndex_update_userndex_user_change_passwordndex_user_forgot_passwordndex_user_get_networksummaryndex_user_get_showcasendex_user_list_groupsndex_user_list_permissionsndex_user_mail_passwordndex_user_show_groupndex_user_show_permissionndex_verify_user

Dependencies:askpassclicpp11curldplyrgenericsgluehttrigraphjsonlitelatticelifecyclemagrittrMatrixmimeopensslpillarpkgconfigplyrpurrrR6RcppRCXrlangstringistringrsystibbletidyrtidyselectutf8vctrswithr

NDExR - R implementaion for NDEx server API

Florian J. Auer, Zaynab Hammoud, Frank Kramer

Rendered fromndexr-vignette.Rmdusingknitr::rmarkdownon May 29 2026.

Last update: 2022-10-27
Started: 2017-04-03

Readme and manuals

Help Manual

Help pageTopics
NDEx R client libraryndexr-package ndexr
NDEx server api configurationndex_config
Connect to NDEx REST APIndex_connect
Create Groupndex_create_group
Create a Network at a server from RCX datandex_create_network
Create a userndex_create_user
Delete Groupndex_delete_group
Delete a networkndex_delete_network
Delete Userndex_delete_user
Search groups in NDExndex_find_groups
Search networks in NDEx (by description)ndex_find_networks
Get User By UUIDndex_find_user_byId
Get User By Namendex_find_user_byName
Search user in NDExndex_find_users
Get a Groupndex_get_group
Get complete networkndex_get_network
Remove a Group Memberndex_group_delete_membership
Get Network Permissions of a Groupndex_group_list_networks
Get Members of a Groupndex_group_list_users
Get Group Permission for a Specific Networkndex_group_network_get_permission
Add or Update a Group Memberndex_group_set_membership
Get the Metadata Associated with a Network UUIDndex_network_aspect_get_metadata
Delete Network Permissionndex_network_delete_permission
Get a Network Aspect As CXndex_network_get_aspect
Get Network CX Metadata Collectionndex_network_get_metadata
Get All Permissions on a Networkndex_network_get_permission
Get Network Provenancendex_network_get_provenance
Get NetworkSummary by Network UUIDndex_network_get_summary
Set Network System Propertiesndex_network_set_systemProperties
Update an Aspect of a Networkndex_network_update_aspect
Update Network Permissionndex_network_update_permission
Update Network Profilendex_network_update_profile
Update Groupndex_update_group
Update an Entire Network as CXndex_update_network
Update Userndex_update_user
Change Passwordndex_user_change_password
Forgot Passwordndex_user_forgot_password
Get User's Account Page Networksndex_user_get_networksummary
Get User's Showcase Networksndex_user_get_showcase
Get User's Group Membershipsndex_user_list_groups
Get User's Network Permissionsndex_user_list_permissions
Email New Passwordndex_user_mail_password
Get User's Membership in Groupndex_user_show_group
Get User's Permission for Networkndex_user_show_permission
Verify a Userndex_verify_user