BiocBuildReporter
This is the released version of BiocBuildReporter; for the devel version, see BiocBuildReporter.
Functions to process a bioconductor build report database
Bioconductor version: Release (3.23)
This package reads remote parquet files that have processed Bioconductor build report logs. Users may query the tables directly for specific information or use pre-defined helper functions for common queries. The logs processed are from https://bioconductor.org/checkResults/. In the future we will extend this package out to include processing of r-universe logs.
Author: Sean Davis [aut], Lori Shepherd [aut, cre]
Maintainer: Lori Shepherd <lori.shepherd at roswellpark.org>
citation("BiocBuildReporter")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("BiocBuildReporter")
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("BiocBuildReporter")| BiocBuildReporter Data Use Cases | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Infrastructure, Software |
| Version | 1.0.1 |
| In Bioconductor since | BioC 3.23 (R-4.6) (< 6 months) |
| License | Apache License (>= 2) |
| Depends | R (>= 4.6.0) |
| Imports | arrow, dplyr, BiocFileCache |
| System Requirements | |
| URL | https://github.com/lshep/BiocBuildReporter.git |
| Bug Reports | https://github.com/lshep/BiocBuildReporter/issues |
See More
| Suggests | BiocStyle, testthat (>= 3.0.0), knitr, rmarkdown, ggplot2, tidyr, stringr |
| 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 | BiocBuildReporter_1.0.1.tar.gz |
| Windows Binary (x86_64) | BiocBuildReporter_1.0.1.zip |
| macOS Binary (big-sur-x86_64) | BiocBuildReporter_1.0.1.tgz |
| macOS Binary (sonoma-arm64) | BiocBuildReporter_1.0.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/BiocBuildReporter |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BiocBuildReporter |
| Bioc Package Browser | https://code.bioconductor.org/browse/BiocBuildReporter/ |
| Package Short Url | https://bioconductor.org/packages/BiocBuildReporter/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.23 | Source Archive |