ScreenR
This is thereleased version of ScreenR; for the devel version, seeScreenR.
Package to Perform High Throughput Biological Screening
Bioconductor version: Release (3.22)
ScreenR is a package suitable to perform hit identification in loss of function High Throughput Biological Screenings performed using barcoded shRNA-based libraries. ScreenR combines the computing power of software such as edgeR with the simplicity of use of the Tidyverse metapackage. ScreenR executes a pipeline able to find candidate hits from barcode counts, and integrates a wide range of visualization modes for each step of the analysis.
Author: Emanuel Michele Soda [aut, cre] (ORICD: 0000-0002-2301-6465), Elena Ceccacci [aut] (ORICD: 0000-0002-2285-8994), Saverio Minucci [fnd, ths] (ORICD: 0000-0001-5678-536X)
Maintainer: Emanuel Michele Soda <emanuelsoda at gmail.com>
citation("ScreenR")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("ScreenR")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | AssayDomain,GeneExpression,Software |
| Version | 1.11.0 |
| In Bioconductor since | BioC 3.16 (R-4.2) (3 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.2) |
| Imports | methods (>= 4.0),rlang (>= 0.4),stringr (>= 1.4),limma(>= 3.46),patchwork (>= 1.1),tibble (>= 3.1.6),scales (>= 1.1.1),ggvenn (>= 0.1.9),purrr (>= 0.3.4),ggplot2 (>= 3.3), stats,tidyr (>= 1.2),magrittr (>= 1.0),dplyr (>= 1.0),edgeR(>= 3.32),tidyselect (>= 1.1.2) |
| System Requirements | |
| URL | https://emanuelsoda.github.io/ScreenR/ |
| Bug Reports | https://github.com/EmanuelSoda/ScreenR/issues |
See More
| Suggests | rmarkdown (>= 2.11),knitr (>= 1.37),testthat (>= 3.0.0),BiocStyle(>= 2.22.0),covr (>= 3.5) |
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| Depends On Me | |
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| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | ScreenR_1.11.0.zip (64-bit only) |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/ScreenR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ScreenR |
| Bioc Package Browser | https://code.bioconductor.org/browse/ScreenR/ |
| Package Short Url | https://bioconductor.org/packages/ScreenR/ |
| Package Downloads Report | Download Stats |