CAGEWorkflow
A step-by-step guide to analyzing CAGE data using R/Bioconductor
Bioconductor version: 3.23 · Package version: 1.28.0
Workflow for analyzing Cap Analysis of Gene Expression (CAGE) data using R/Bioconductor.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CAGEWorkflow")Details
| Maintainer | Malte Thodberg <maltethodberg@gmail.com> |
| Author | Malte Thodberg [aut, cre] |
| License | GPL-3 |
| Downloads rank | 78 |
| Source branch | RELEASE_3_23 |
| biocViews | AnnotationWorkflow, GeneExpressionWorkflow, Workflow |
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Dependencies
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