uncoverappLib

DOI: 10.18129/B9.bioc.uncoverappLib    

This is the development version of uncoverappLib; to use it, please install the devel version of Bioconductor.

Interactive graphical application for clinical assessment of sequence coverage at the base-pair level

Bioconductor version: Development (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 (from within R, enter citation("uncoverappLib")):

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

 

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PDF   Reference Manual
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Text   LICENSE

Details

biocViews Annotation, Coverage, Software, Visualization
Version 0.99.23
In Bioconductor since BioC 3.12 (R-4.0)
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
LinkingTo
Suggests BiocStyle, knitr, testthat, rmarkdown, dplyr
SystemRequirements
Enhances
URL https://github.com/Manuelaio/uncoverappLib
BugReports https://github.com/Manuelaio/uncoverappLib/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package uncoverappLib_0.99.23.tar.gz
Windows Binary uncoverappLib_0.99.23.zip
macOS 10.13 (High Sierra) uncoverappLib_0.99.23.tgz
Source Repository git clone https://git.bioconductor.org/packages/uncoverappLib
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/uncoverappLib
Package Short Url https://bioconductor.org/packages/uncoverappLib/
Package Downloads Report Download Stats

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