FastqCleaner
A Shiny Application for Quality Control, Filtering and Trimming of FASTQ Files
Bioconductor version: Release (3.19)
An interactive web application for quality control, filtering and trimming of FASTQ files. This user-friendly tool combines a pipeline for data processing based on Biostrings and ShortRead infrastructure, with a cutting-edge visual environment. Single-Read and Paired-End files can be locally processed. Diagnostic interactive plots (CG content, per-base sequence quality, etc.) are provided for both the input and output files.
Author: Leandro Roser [aut, cre], Fernán Agüero [aut], Daniel Sánchez [aut]
Maintainer: Leandro Roser <learoser at gmail.com>
citation("FastqCleaner")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("FastqCleaner")
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("FastqCleaner")
An Introduction to FastqCleaner | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | QualityControl, SangerSeq, SequenceMatching, Sequencing, Software |
Version | 1.22.0 |
In Bioconductor since | BioC 3.8 (R-3.5) (6 years) |
License | MIT + file LICENSE |
Depends | |
Imports | methods, shiny, stats, IRanges, Biostrings, ShortRead, DT, S4Vectors, graphics, htmltools, shinyBS, Rcpp (>= 0.12.12) |
System Requirements | |
URL |
See More
Suggests | BiocStyle, testthat, knitr, rmarkdown |
Linking To | Rcpp |
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 | FastqCleaner_1.22.0.tar.gz |
Windows Binary | FastqCleaner_1.22.0.zip |
macOS Binary (x86_64) | FastqCleaner_1.22.0.tgz |
macOS Binary (arm64) | FastqCleaner_1.22.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/FastqCleaner |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/FastqCleaner |
Bioc Package Browser | https://code.bioconductor.org/browse/FastqCleaner/ |
Package Short Url | https://bioconductor.org/packages/FastqCleaner/ |
Package Downloads Report | Download Stats |