GNOSIS
This is the development version of GNOSIS; for the stable release version, see GNOSIS.
Genomics explorer using statistical and survival analysis in R
Bioconductor version: Development (3.21)
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] (ORCID:
Maintainer: Lydia King <l.king18 at universityofgalway.ie>
citation("GNOSIS")):
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("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 | 1.5.0 |
| 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_1.5.0.tar.gz |
| Windows Binary (x86_64) | GNOSIS_1.5.0.zip |
| macOS Binary (x86_64) | GNOSIS_1.5.0.tgz |
| macOS Binary (arm64) | |
| 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 |