Package: fourSynergy
Type: Package
Title: Ensemble algorithm for 4C-seq data
Version: 1.0.0
Authors@R: 
	c(person("Sophie", "Wind", , 
	 email = "sophie.wind@uni-muenster.de", 
	 role = c("aut", "cre"),
	 comment=c(ORCID="0009-0002-1174-8201")),
	 person("Carolin", "Walter", , 
	 email = "carolin.walter@uni-muenster.de", 
	 role = c("aut", "fnd"),
	 comment=c(ORCID="0000-0002-5155-7728")))
Description: fourSynergy is an ensemble algorithm leveraging synergies
        among the existing 4C-seq algorithms r3C-seq, peakC, r.4cker
        and fourSig. It uses a weighted voting approach to perform
        improved interaction calling. fourSynergy supports also
        differential interaction calling.
License: LGPL-3
Encoding: UTF-8
Depends: R (>= 4.5.0), GenomicRanges
Imports: magrittr, dplyr, ggplot2, tibble, org.Hs.eg.db, org.Mm.eg.db,
        reshape2, tidyr, methods, jsonlite, karyoploteR,
        TxDb.Mmusculus.UCSC.mm10.knownGene,
        TxDb.Hsapiens.UCSC.hg19.knownGene, bamsignals, DESeq2,
        GenomeInfoDb, graphics, stringr, yaml
VignetteBuilder: knitr
Suggests: testthat (>= 3.0.0), knitr, rmarkdown, BiocStyle
biocViews: Sequencing, Software, DifferentialPeakCalling
BugReports: https://github.com/sophiewind/fourSynergy/issues
URL: https://github.com/sophiewind/fourSynergy
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.3
Config/pak/sysreqs: cmake make libbz2-dev libicu-dev liblzma-dev
        libpng-dev libuv1-dev libxml2-dev libssl-dev xz-utils
        zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 13:06:31 UTC
RemoteUrl: https://github.com/bioc/fourSynergy
RemoteRef: RELEASE_3_23
RemoteSha: 0258f4531866f558b86b3a5de01f99d3e3a8f0c4
NeedsCompilation: no
Packaged: 2026-04-29 21:25:01 UTC; root
Author: Sophie Wind [aut, cre] (ORCID: <https://orcid.org/0009-0002-1174-8201>),
  Carolin Walter [aut, fnd] (ORCID:
    <https://orcid.org/0000-0002-5155-7728>)
Maintainer: Sophie Wind <sophie.wind@uni-muenster.de>
Built: R 4.6.0; ; 2026-04-29 21:34:24 UTC; windows
