Package: seqCAT 1.34.0

Erik Fasterius

seqCAT: High Throughput Sequencing Cell Authentication Toolkit

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.

Authors:Erik Fasterius [aut, cre]

seqCAT_1.34.0.tar.gz
seqCAT_1.34.0.zip(r-4.7)seqCAT_1.34.0.zip(r-4.6)seqCAT_1.34.0.zip(r-4.5)
seqCAT_1.34.0.tgz(r-4.6-any)seqCAT_1.34.0.tgz(r-4.5-any)
seqCAT_1.34.0.tar.gz(r-4.7-any)seqCAT_1.34.0.tar.gz(r-4.6-any)
seqCAT_1.34.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
seqCAT/json (API)
NEWS

# Install 'seqCAT' in R:
install.packages('seqCAT', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))
Datasets:

On BioConductor:seqCAT-1.35.0(bioc 3.24)seqCAT-1.34.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

coveragegenomicvariationsequencingvariantannotation

4.00 score 1 scripts 408 downloads 17 exports 90 dependencies

Last updated from:f6898d312c (on RELEASE_3_23). Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING217
linux-devel-x86_64NOTE418
source / vignettesOK329
linux-release-x86_64NOTE397
macos-release-arm64NOTE423
macos-oldrel-arm64NOTE314
windows-develNOTE347
windows-releaseNOTE305
windows-oldrelNOTE310
wasm-releaseOK165

Exports:calculate_similaritycompare_manycompare_profilescreate_profilecreate_profilesfilter_duplicatesfilter_variantslist_cosmiclist_variantsplot_heatmapplot_impactsplot_variant_listread_cosmicread_profileread_profileswrite_profilewrite_profiles

Dependencies:abindAnnotationDbiaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobBSgenomecachemcigarilloclicodetoolscpp11crayoncurlDBIDelayedArraydplyrfarverfastmapformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegtablehttrIRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigpngpurrrR6RColorBrewerRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorsS7scalesSeqinfosnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselectUCSC.utilsutf8VariantAnnotationvctrsviridisLitewithrXMLXVectoryaml

seqCAT: The High Throughput Sequencing Cell Authentication Toolkit

Erik Fasterius

Rendered fromseqCAT.Rmdusingknitr::rmarkdownon Jun 10 2026.

Last update: 2019-06-20
Started: 2017-08-31