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Showing content from https://www.bioconductor.org/packages/devel/bioc/html/../../bioc/html/ngsReports.html below:

Bioconductor - ngsReports (development version)

ngsReports

This is the development version of ngsReports; for the stable release version, see ngsReports.

Load FastqQC reports and other NGS related files

Bioconductor version: Development (3.22)

This package provides methods and object classes for parsing FastQC reports and output summaries from other NGS tools into R. As well as parsing files, multiple plotting methods have been implemented for visualising the parsed data. Plots can be generated as static ggplot objects or interactive plotly objects.

Author: Stevie Pederson [aut, cre] ORCID: 0000-0001-8197-3303 , Christopher Ward [aut], Thu-Hien To [aut]

Maintainer: Stevie Pederson <stephen.pederson.au at gmail.com>

Citation (from within R, enter citation("ngsReports")): Installation

To install this package, start R (version "4.5") and enter:


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

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

BiocManager::install("ngsReports")

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("ngsReports")
Details biocViews QualityControl, ReportWriting, Software Version 2.11.0 In Bioconductor since BioC 3.9 (R-3.6) (6 years) License LGPL-3 Depends R (>= 4.2.0), BiocGenerics, ggplot2 (>= 3.5.0), patchwork (>= 1.1.1), tibble (>= 1.3.1) Imports Biostrings, checkmate, dplyr (>= 1.1.0), forcats, ggdendro, grDevices (>= 3.6.0), grid, jsonlite, lifecycle, lubridate, methods, plotly (>= 4.9.4), reshape2, rlang, rmarkdown, scales, stats, stringr, tidyr, tidyselect (>= 0.2.3), utils, zoo System Requirements URL https://github.com/smped/ngsReports Bug Reports https://github.com/smped/ngsReports/issues See More Package Archives

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

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