DOI: 10.18129/B9.bioc.Rfastp  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see Rfastp.

An Ultra-Fast and All-in-One Fastq Preprocessor (Quality Control, Adapter, low quality and polyX trimming) and UMI Sequence Parsing).

Bioconductor version: 3.17

Rfastp is an R wrapper of fastp developed in c++. fastp performs quality control for fastq files. including low quality bases trimming, polyX trimming, adapter auto-detection and trimming, paired-end reads merging, UMI sequence/id handling. Rfastp can concatenate multiple files into one file (like shell command cat) and accept multiple files as input.

Author: Wei Wang [aut] , Ji-Dung Luo [ctb] , Thomas Carroll [cre, aut]

Maintainer: Thomas Carroll <tc.infomatics at gmail.com>

Citation (from within R, enter citation("Rfastp")):


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biocViews Preprocessing, QualityControl, Sequencing, Software
Version 1.10.0
In Bioconductor since BioC 3.12 (R-4.0) (3 years)
License GPL-3 + file LICENSE
Imports Rcpp, rjson, ggplot2, reshape2
LinkingTo Rcpp, Rhtslib, zlibbioc
Suggests BiocStyle, testthat, knitr, rmarkdown
SystemRequirements GNU make
Depends On Me
Imports Me
Suggests Me
Links To Me
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Source Package Rfastp_1.10.0.tar.gz
Windows Binary Rfastp_1.10.0.zip (64-bit only)
macOS Binary (x86_64) Rfastp_1.10.0.tgz
macOS Binary (arm64) Rfastp_1.10.0.tgz
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Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/Rfastp
Bioc Package Browser https://code.bioconductor.org/browse/Rfastp/
Package Short Url https://bioconductor.org/packages/Rfastp/
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