uncoverappLib
This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see uncoverappLib.
Interactive graphical application for clinical assessment of sequence coverage at the base-pair level
Bioconductor version: 3.12
a Shiny application containing a suite of graphical and statistical tools to support clinical assessment of low coverage regions.It displays three web pages each providing a different analysis module: Coverage analysis, calculate AF by allele frequency app and binomial distribution.
Author: Emanuela Iovino [cre, aut], Tommaso Pippucci [aut]
Maintainer: Emanuela Iovino <emanuela.iovino at unibo.it>
citation("uncoverappLib")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("uncoverappLib")
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("uncoverappLib")| uncoverappLib | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Annotation, Coverage, Software, Visualization |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (3.5 years) |
| License | MIT + file LICENSE |
| Depends | |
| Imports | markdown, shiny, shinyjs, shinyBS, shinyWidgets, shinycssloaders, DT, Gviz, Homo.sapiens, openxlsx, condformat, stringr, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg38.knownGene, BiocFileCache, rappdirs, TxDb.Hsapiens.UCSC.hg19.knownGene, rlist, utils, EnsDb.Hsapiens.v75, EnsDb.Hsapiens.v86, OrganismDbi, BSgenome.Hsapiens.UCSC.hg19, processx, Rsamtools, GenomicRanges |
| System Requirements | |
| URL | https://github.com/Manuelaio/uncoverappLib |
| Bug Reports | https://github.com/Manuelaio/uncoverappLib/issues |
See More
| Suggests | BiocStyle, knitr, testthat, rmarkdown, dplyr |
| 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 | uncoverappLib_1.0.0.tar.gz |
| Windows Binary | uncoverappLib_1.0.0.zip |
| macOS 10.13 (High Sierra) | uncoverappLib_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/uncoverappLib |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/uncoverappLib |
| Bioc Package Browser | https://code.bioconductor.org/browse/uncoverappLib/ |
| Package Short Url | https://bioconductor.org/packages/uncoverappLib/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.12 | Source Archive |