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 (3.24)
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] 
, Christopher Ward [aut], Thu-Hien To [aut]
Maintainer: Stevie Pederson <stephen.pederson.au at gmail.com>
citation("ngsReports")):Stevie Pederson, Christopher Ward, Thu-Hien To. ngsReports: Load FastqQC reports and other NGS related files. doi:10.18129/B9.bioc.ngsReports, R package version 2.15.0, https://bioconductor.org/packages/ngsReports.
Generated from the package metadata; it may differ from the package's own citation.
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("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")| An Introduction To ngsReports | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | QualityControl, ReportWriting, Software |
| Version | 2.15.0 |
| In Bioconductor since | BioC 3.9 (R-3.6) (7.5 years) |
| License | LGPL-3 |
| Depends | R (>= 4.2.0), BiocGenerics, ggplot2 (>= 4.0.0), 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), 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
| Suggests | BiocStyle, Cairo, DT, knitr, pander, readr, testthat, truncnorm |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | ngsReports_2.15.0.tar.gz |
| Windows Binary (x86_64) | ngsReports_2.15.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | ngsReports_2.15.0.tgz |
| macOS Binary (sonoma-arm64) | ngsReports_2.15.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/ngsReports |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ngsReports |
| Package Short Url | https://bioconductor.org/packages/ngsReports/ |
| Package Downloads Report | Download Stats |