GNOSIS
Genomics explorer using statistical and survival analysis in R
Bioconductor version: Release (3.19)
GNOSIS incorporates a range of R packages enabling users to efficiently explore and visualise clinical and genomic data obtained from cBioPortal. GNOSIS uses an intuitive GUI and multiple tab panels supporting a range of functionalities. These include data upload and initial exploration, data recoding and subsetting, multiple visualisations, survival analysis, statistical analysis and mutation analysis, in addition to facilitating reproducible research.
Author: Lydia King [aut, cre] , Marcel Ramos [ctb]
Maintainer: Lydia King <l.king18 at universityofgalway.ie>
citation("GNOSIS")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("GNOSIS")
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("GNOSIS")
GNOSIS Overview | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text | |
GNOSIS: an R Shiny app supporting cancer genomics survival analysis with cBioPortal | Video |
Details
biocViews | GUI, ShinyApps, Software, Survival |
Version | 1.2.0 |
In Bioconductor since | BioC 3.18 (R-4.3) (1 year) |
License | MIT + file LICENSE |
Depends | R (>= 4.3.0), shiny, shinydashboard, shinydashboardPlus, dashboardthemes, shinyWidgets, shinymeta, tidyverse, operator.tools, maftools |
Imports | DT, fontawesome, shinycssloaders, cBioPortalData, shinyjs, reshape2, RColorBrewer, survival, survminer, stats, compareGroups, rpart, partykit, DescTools, car, rstatix, fabricatr, shinylogs, magrittr |
System Requirements | |
URL | https://github.com/Lydia-King/GNOSIS/ |
Bug Reports | https://github.com/Lydia-King/GNOSIS/issues |
See More
Suggests | BiocStyle, knitr, rmarkdown |
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 | GNOSIS_1.2.0.tar.gz |
Windows Binary | GNOSIS_1.2.0.zip |
macOS Binary (x86_64) | GNOSIS_1.2.0.tgz |
macOS Binary (arm64) | GNOSIS_1.2.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/GNOSIS |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/GNOSIS |
Bioc Package Browser | https://code.bioconductor.org/browse/GNOSIS/ |
Package Short Url | https://bioconductor.org/packages/GNOSIS/ |
Package Downloads Report | Download Stats |