qrqc
This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see qrqc.
Quick Read Quality Control
Bioconductor version: 3.9
Quickly scans reads and gathers statistics on base and quality frequencies, read length, k-mers by position, and frequent sequences. Produces graphical output of statistics for use in quality control pipelines, and an optional HTML quality report. S4 SequenceSummary objects allow specific tests and functionality to be written around the data collected.
Author: Vince Buffalo
Maintainer: Vince Buffalo <vsbuffalo at ucdavis.edu>
citation("qrqc")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("qrqc")
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("qrqc")| Using the qrqc package to gather information about sequence qualities | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataImport, Preprocessing, QualityControl, Sequencing, Software, Visualization |
| Version | 1.38.0 |
| In Bioconductor since | BioC 2.8 (R-2.13) (13 years) |
| License | GPL (>=2) |
| Depends | reshape, ggplot2, Biostrings, biovizBase, brew, xtable, testthat |
| Imports | reshape, ggplot2, Biostrings, biovizBase, graphics, methods, plyr, stats |
| System Requirements | |
| URL | http://github.com/vsbuffalo/qrqc |
See More
| Suggests | |
| Linking To | Rhtslib(>= 1.15.3) |
| 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 | qrqc_1.38.0.tar.gz |
| Windows Binary | qrqc_1.38.0.zip |
| Mac OS X 10.11 (El Capitan) | qrqc_1.38.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/qrqc |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/qrqc |
| Bioc Package Browser | https://code.bioconductor.org/browse/qrqc/ |
| Package Short Url | https://bioconductor.org/packages/qrqc/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |