Package: FourCSeq
Type: Package
Title: Package analyse 4C sequencing data
Version: 1.24.0
Date: 2020-07-29
Authors@R: c(
        person(given = c("Felix", "A."), "Klein", 
            role = "aut",
            email = "daggoth@gmx.de"), 
        person("Mike", "Smith", 
            role="cre", 
            email = "mike.smith@embl.de")
        )
Depends: R (>= 3.0), splines, LSD, DESeq2 (>= 1.9.11), ggplot2
Imports: Biobase, Biostrings, GenomicRanges, SummarizedExperiment,
        Rsamtools, ggbio, reshape2, rtracklayer, fda,
        GenomicAlignments, gtools, Matrix, methods
Suggests: BiocStyle, knitr, TxDb.Dmelanogaster.UCSC.dm3.ensGene
VignetteBuilder: knitr
Description: FourCSeq is an R package dedicated to the analysis of
    (multiplexed) 4C sequencing data. The package provides a
    pipeline to detect specific interactions between DNA elements
    and identify differential interactions between conditions. The
    statistical analysis in R starts with individual bam files for
    each sample as inputs. To obtain these files, the package
    contains a python script (extdata/python/demultiplex.py) to
    demultiplex libraries and trim off primer sequences. With a
    standard alignment software the required bam files can be then
    be generated.
License: GPL (>= 3)
biocViews: Software, Preprocessing, Sequencing
PackageStatus: Deprecated
RoxygenNote: 7.1.1
Encoding: UTF-8
git_url: https://git.bioconductor.org/packages/FourCSeq
git_branch: RELEASE_3_12
git_last_commit: 5575105
git_last_commit_date: 2020-10-27
Date/Publication: 2020-10-27
NeedsCompilation: no
Packaged: 2020-10-28 00:16:26 UTC; biocbuild
Author: Felix A. Klein [aut],
  Mike Smith [cre]
Maintainer: Mike Smith <mike.smith@embl.de>
Built: R 4.0.3; ; 2021-04-03 12:17:59 UTC; unix
