seqCAT

High Throughput Sequencing Cell Authentication Toolkit

Bioconductor version: 3.23 · Package version: 1.34.0

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.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("seqCAT")

Details

Maintainer	Erik Fasterius <erik.fasterius@outlook.com>
Author	Erik Fasterius [aut, cre]
License	MIT + file LICENCE
Downloads rank	325
Source branch	RELEASE_3_23
biocViews	Coverage, GenomicVariation, Sequencing, Software, VariantAnnotation

Documentation

seqCAT: The High Throughput Sequencing Cell Authentication Toolkit

Download

Source package

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