Rfastp
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.22 of Bioconductor. This package has been removed from Bioconductor. For the last 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: Release (3.22)
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] ORCID iD ORCID: 0000-0002-3216-7118 , Ji-Dung Luo [ctb] ORCID iD ORCID: 0000-0003-0150-1440 , Thomas Carroll [cre, aut] ORCID iD ORCID: 0000-0002-0073-1714
Maintainer: Thomas Carroll <tc.infomatics at gmail.com>
citation("Rfastp")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("Rfastp")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
Details
Package Archives
Follow Installation instructions to use this package in your R session.