Package: CAGEWorkflow
Type: Package
Title: A step-by-step guide to analyzing CAGE data using R/Bioconductor
Version: 1.29.0
Authors@R: person("Malte", "Thodberg", email = "maltethodberg@gmail.com", role = c("aut", "cre"))
Description: Workflow for analyzing Cap Analysis of Gene Expression
        (CAGE) data using R/Bioconductor.
License: GPL-3
Encoding: UTF-8
Depends: R (>= 3.6.0), CAGEfightR, nanotubes
Suggests: knitr, magick, rmarkdown, BiocStyle, BiocWorkflowTools,
        pheatmap, ggseqlogo, viridis, magrittr, ggforce, ggthemes,
        tidyverse, dplyr, GenomicRanges, SummarizedExperiment,
        GenomicFeatures, BiocParallel, InteractionSet, Gviz, DESeq2,
        limma, edgeR, statmod, BiasedUrn, sva, TFBSTools, motifmatchr,
        pathview, BSgenome.Mmusculus.UCSC.mm9,
        TxDb.Mmusculus.UCSC.mm9.knownGene, org.Mm.eg.db, JASPAR2016,
        png
VignetteBuilder: knitr
Workflow: true
RoxygenNote: 7.1.2
biocViews: GeneExpressionWorkflow, AnnotationWorkflow
Config/pak/sysreqs: cmake libglpk-dev make libbz2-dev libicu-dev
        libjpeg-dev liblzma-dev libpng-dev libuv1-dev libxml2-dev
        libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:43:33 UTC
RemoteUrl: https://github.com/bioc/CAGEWorkflow
RemoteRef: HEAD
RemoteSha: dcacfde7dc04c715a0b0db4e3b1f5d9123048765
NeedsCompilation: no
Packaged: 2026-10-01 15:43:59 UTC; root
Author: Malte Thodberg [aut, cre]
Maintainer: Malte Thodberg <maltethodberg@gmail.com>