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GNOSIS

Genomics explorer using statistical and survival analysis in R


Bioconductor version: Release (3.18)

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 (from within R, enter citation("GNOSIS")):

Installation

To install this package, start R (version "4.3") 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 PDF
NEWS Text
LICENSE Text
GNOSIS: an R Shiny app supporting cancer genomics survival analysis with cBioPortal Video

Details

biocViews GUI, ShinyApps, Software, Survival
Version 1.0.0
In Bioconductor since BioC 3.18 (R-4.3) (< 6 months)
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_1.0.0.tar.gz
Windows Binary GNOSIS_1.0.0.zip (64-bit only)
macOS Binary (x86_64) GNOSIS_1.0.0.tgz
macOS Binary (arm64) GNOSIS_1.0.0.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