This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see qrqc.
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 (from within R,
enter citation("qrqc")
):
To install this package, start R (version "3.6") and enter:
if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("qrqc")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("qrqc")
R Script | Using the qrqc package to gather information about sequence qualities | |
Reference Manual | ||
Text | NEWS |
biocViews | DataImport, Preprocessing, QualityControl, Sequencing, Software, Visualization |
Version | 1.38.0 |
In Bioconductor since | BioC 2.8 (R-2.13) (8.5 years) |
License | GPL (>=2) |
Depends | reshape, ggplot2, Biostrings, biovizBase, brew, xtable, testthat |
Imports | reshape, ggplot2, Biostrings, biovizBase, graphics, methods, plyr, stats |
LinkingTo | Rhtslib(>= 1.15.3) |
Suggests | |
SystemRequirements | |
Enhances | |
URL | http://github.com/vsbuffalo/qrqc |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
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 |
Package Short Url | https://bioconductor.org/packages/qrqc/ |
Package Downloads Report | Download Stats |
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