imageTCGA
This is the development version of imageTCGA; for the stable release version, see imageTCGA.
TCGA Diagnostic Image Database Explorer
Bioconductor version: Development (3.24)
A Shiny application to explore the TCGA Diagnostic Image Database.
Author: Ilaria Billato [aut, cre] (ORCID:
, affiliation: Department of Biology, University of Padova), Marcel Ramos [ctb] (affiliation: CUNY Graduate School of Public Health and Health Policy, New York, NY USA), Mohamed Omar [ctb] (affiliation: Department of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, California), Sehyun Oh [ctb] (affiliation: CUNY Graduate School of Public Health and Health Policy, New York, NY USA), Levi Waldron [ctb] (affiliation: CUNY Graduate School of Public Health and Health Policy, New York, NY USA), Davide Risso [ctb] (affiliation: Department of Statistical Sciences, University of Padova), Chiara Romualdi [ctb] (affiliation: Department of Biology, University of Padova)
Maintainer: Ilaria Billato <ilaria.billato at phd.unipd.it>
citation("imageTCGA")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("imageTCGA")
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("imageTCGA")| imageTCGA: A Shiny application to explore the TCGA Diagnostic Images | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ShinyApps, Software |
| Version | 1.5.0 |
| In Bioconductor since | BioC 3.21 (R-4.5) (1.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.5.0), shiny |
| Imports | DT, dplyr, bslib, bsicons, ggplot2, viridis, tidyr, leaflet, clipr, rlang |
| System Requirements | |
| URL | https://github.com/billila/imageTCGA |
| Bug Reports | https://github.com/billila/imageTCGA/issues |
See More
| Suggests | BiocManager, BiocStyle, knitr, curl, glue, rmarkdown, sessioninfo, testthat, tibble, GenomicDataCommons |
| 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 | imageTCGA_1.5.0.tar.gz |
| Windows Binary (x86_64) | imageTCGA_1.5.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | imageTCGA_1.5.0.tgz |
| macOS Binary (sonoma-arm64) | imageTCGA_1.5.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/imageTCGA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/imageTCGA |
| Bioc Package Browser | https://code.bioconductor.org/browse/imageTCGA/ |
| Package Short Url | https://bioconductor.org/packages/imageTCGA/ |
| Package Downloads Report | Download Stats |