CRISPRball
This is the development version of CRISPRball; for the stable release version, see CRISPRball.
Shiny Application for Interactive CRISPR Screen Visualization, Exploration, Comparison, and Filtering
Bioconductor version: Development (3.24)
A Shiny application for visualization, exploration, comparison, and filtering of CRISPR screens analyzed with MAGeCK RRA or MLE. Features include interactive plots with on-click labeling, full customization of plot aesthetics, data upload and/or download, and much more. Quickly and easily explore your CRISPR screen results and generate publication-quality figures in seconds.
Author: Jared Andrews [aut, cre]
, Jacob Steele [ctb]
Maintainer: Jared Andrews <jared.andrews07 at gmail.com>
citation("CRISPRball")):
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("CRISPRball")
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("CRISPRball")| CRISPRball Quick Start | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | CRISPR, GUI, QualityControl, ShinyApps, Software, Visualization |
| Version | 1.9.0 |
| In Bioconductor since | BioC 3.19 (R-4.4) (2.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.4.0), shinyBS |
| Imports | DT, shiny, grid, ComplexHeatmap, InteractiveComplexHeatmap, graphics, stats, ggplot2, plotly, shinyWidgets, shinycssloaders, shinyjqui, dittoSeq, matrixStats, colourpicker, shinyjs, circlize, PCAtools, utils, grDevices, htmlwidgets, methods |
| System Requirements | |
| URL | https://github.com/j-andrews7/CRISPRball |
| Bug Reports | https://support.bioconductor.org/ |
See More
| Suggests | BiocStyle, msigdbr, depmap, pool, RSQLite, mygene, testthat (>= 3.0.0), 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 | CRISPRball_1.9.0.tar.gz |
| Windows Binary (x86_64) | CRISPRball_1.9.0.zip |
| macOS Binary (big-sur-x86_64) | CRISPRball_1.9.0.tgz |
| macOS Binary (sonoma-arm64) | CRISPRball_1.9.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/CRISPRball |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CRISPRball |
| Bioc Package Browser | https://code.bioconductor.org/browse/CRISPRball/ |
| Package Short Url | https://bioconductor.org/packages/CRISPRball/ |
| Package Downloads Report | Download Stats |