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ngsReports

Load FastqQC reports and other NGS related files

Bioconductor version: 3.23 · Package version: 2.14.0

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.

Installation

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

BiocManager::install("ngsReports")

Details

MaintainerStevie Pederson <stephen.pederson.au@gmail.com>
AuthorStevie Pederson [aut, cre] (ORCID: <https://orcid.org/0000-0001-8197-3303>), Christopher Ward [aut], Thu-Hien To [aut]
LicenseLGPL-3
URLhttps://github.com/smped/ngsReports
Bug Reportshttps://github.com/smped/ngsReports/issues
Downloads rank323
Source branchRELEASE_3_23
biocViewsQualityControl, ReportWriting, Software

Documentation

Download

Dependencies

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

Suggests: BiocStyle, Cairo, DT, knitr, pander, readr, testthat, truncnorm