fraq
A High-Throughput and Extensible Toolkit for Processing FASTQ Data
Bioconductor version: 3.23 · Package version: 1.0.2
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
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.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("fraq")Details
| Maintainer | Travers Ching <traversc@gmail.com> |
| Author | Travers Ching [aut, cre, cph] (ORCID: <https://orcid.org/0000-0002-5577-3516>), 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) |
| License | GPL-3 |
| URL | https://github.com/traversc/fraq |
| Bug Reports | https://github.com/traversc/fraq/issues |
| System Requirements | GNU make |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Alignment, DNASeq, Infrastructure, QualityControl, Sequencing, Software |
| Package Short Url | https://bioconductor.org/packages/fraq/ |
Citation
From within R, enter citation("fraq"):
Travers Ching. fraq: A High-Throughput and Extensible Toolkit for Processing FASTQ Data. doi:10.18129/B9.bioc.fraq, R package version 1.0.2, https://bioconductor.org/packages/fraq.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | fraq_1.0.2.tar.gz |
| Windows binary (x86_64) | fraq_1.0.2.zip |
| macOS binary (arm64) | fraq_1.0.2.tgz |
| macOS binary (x86_64) | fraq_1.0.2.tgz |
Dependencies
Depends: R (>= 4.5.0)
Imports: Rcpp, ShortRead, Biostrings, RcppParallel, edlibR, stringfish
LinkingTo: Rcpp, RcppParallel, edlibR