cbpManager
This is the development version of cbpManager; for the stable release version, see cbpManager.
Generate, manage, and edit data and metadata files suitable for the import in cBioPortal for Cancer Genomics
Bioconductor version: Development (3.21)
This R package provides an R Shiny application that enables the user to generate, manage, and edit data and metadata files suitable for the import in cBioPortal for Cancer Genomics. Create cancer studies and edit its metadata. Upload mutation data of a patient that will be concatenated to the data_mutation_extended.txt file of the study. Create and edit clinical patient data, sample data, and timeline data. Create custom timeline tracks for patients.
Author: Arsenij Ustjanzew [aut, cre, cph] (ORCID:
Maintainer: Arsenij Ustjanzew <arsenij.ustjanzew at gmail.com>
citation("cbpManager")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("cbpManager")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("cbpManager")| intro.html | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DataImport, DataRepresentation, GUI, ImmunoOncology, Preprocessing, Software, ThirdPartyClient, Visualization |
| Version | 1.15.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3.5 years) |
| License | AGPL-3 + file LICENSE |
| Depends | shiny, shinydashboard |
| Imports | utils, DT, htmltools, vroom, plyr, dplyr, magrittr, jsonlite, rapportools, basilisk, reticulate, shinyBS, shinycssloaders, rintrojs, rlang, markdown |
| System Requirements | |
| URL | https://arsenij-ust.github.io/cbpManager/index.html |
| Bug Reports | https://github.com/arsenij-ust/cbpManager/issues |
See More
| Suggests | knitr, BiocStyle, rmarkdown, testthat (>= 3.0.0) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | cbpManager_1.15.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/cbpManager |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/cbpManager |
| Bioc Package Browser | https://code.bioconductor.org/browse/cbpManager/ |
| Package Short Url | https://bioconductor.org/packages/cbpManager/ |
| Package Downloads Report | Download Stats |