seqCAT
This is the development version of seqCAT; for the stable release version, see seqCAT.
All Bioconductor versions of seqCAT
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6
High Throughput Sequencing Cell Authentication Toolkit
Bioconductor version: 3.24 · Package version: 1.35.1
The seqCAT package uses variant calling data (in the form of VCF files) from high throughput sequencing technologies to authenticate and validate the source, function and characteristics of biological samples used in scientific endeavours.
Author: Erik Fasterius [aut, cre]
Maintainer: Erik Fasterius <erik.fasterius at outlook.com>
Citation
From within R, enter citation("seqCAT"):
Erik Fasterius. seqCAT: High Throughput Sequencing Cell Authentication Toolkit. doi:10.18129/B9.bioc.seqCAT, R package version 1.35.1, https://bioconductor.org/packages/seqCAT.
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("seqCAT")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.35.1 |
| License | MIT + file LICENCE |
| Last updated | 2026-09-10 |
| In Bioconductor since | BioC 3.6 (R-3.4) (8 years) |
| Downloads rank | 1090 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Coverage, GenomicVariation, Sequencing, Software, VariantAnnotation |
| Package Short Url | https://bioconductor.org/packages/seqCAT/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("seqCAT")| seqCAT: The High Throughput Sequencing Cell Authentication Toolkit | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | seqCAT_1.35.1.tar.gz |
| Windows binary (x86_64) | seqCAT_1.35.1.zip |
| macOS binary (arm64) | seqCAT_1.35.1.tgz |
| macOS binary (x86_64) | seqCAT_1.35.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/seqCAT |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/seqCAT |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 3.6), GenomicRanges (>= 1.26.4), VariantAnnotation (>= 1.20.3)
Imports: dplyr (>= 0.5.0), GenomeInfoDb (>= 1.13.4), ggplot2 (>= 2.2.1), grid (>= 3.5.0), IRanges (>= 2.8.2), methods, rtracklayer, rlang, scales (>= 0.4.1), S4Vectors (>= 0.12.2), stats, SummarizedExperiment (>= 1.4.0), tidyr (>= 0.6.1), utils
Suggests: knitr, BiocStyle, rmarkdown, testthat, BiocManager