fraq
This is the development version of fraq; for the stable release version, see fraq.
A High-Throughput and Extensible Toolkit for Processing FASTQ Data
Bioconductor version: Development (3.24)
High-throughput extensible toolkit for processing FASTQ data. The goal of this package is to empower users to quickly build out small programmatic 'kernels' to define any FASTQ processing task they may need. Builds on Intel TBB’s flow graph to orchestrate concurrent I/O and data processing; throughput can be as fast as compression and disk speed allows. The package also ships with a suite of predefined kernels for common FASTQ tasks.
Author: Travers Ching [aut, cre, cph] 
, Yann Collet [ctb, cph] (Author of the bundled zstd library), Facebook, Inc. [cph] (Copyright holder of the bundled zstd code), Reichardt Tino [ctb, cph] (Contributor/copyright holder of bundled zstd code), Skibinski Przemyslaw [ctb, cph] (Contributor/copyright holder of bundled zstd code), Mori Yuta [ctb, cph] (Contributor/copyright holder of bundled zstd code)
Maintainer: Travers Ching <traversc at gmail.com>
citation("fraq")):Travers Ching. fraq: A High-Throughput and Extensible Toolkit for Processing FASTQ Data. doi:10.18129/B9.bioc.fraq, R package version 1.1.3, https://bioconductor.org/packages/fraq.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("fraq")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("fraq")| fraq | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Alignment, DNASeq, Infrastructure, QualityControl, Sequencing, Software |
| Version | 1.1.3 |
| In Bioconductor since | BioC 3.23 (R-4.6) (< 6 months) |
| License | GPL-3 |
| Depends | R (>= 4.5.0) |
| Imports | Rcpp, Biostrings, RcppParallel (>= 6.1.1), edlibR, stringfish |
| System Requirements | GNU make |
| URL | https://github.com/traversc/fraq |
| Bug Reports | https://github.com/traversc/fraq/issues |
See More
| Suggests | knitr, rmarkdown, BiocStyle, processx, ShortRead |
| Linking To | Rcpp, RcppParallel, edlibR |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | fraq_1.1.3.tar.gz |
| Windows Binary (x86_64) | fraq_1.1.3.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | fraq_1.1.3.tgz |
| macOS Binary (sonoma-arm64) | fraq_1.1.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/fraq |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/fraq |
| Package Short Url | https://bioconductor.org/packages/fraq/ |
| Package Downloads Report | Download Stats |