Package: chicane
Title: Capture Hi-C Analysis Engine
Type: Package
Version: 0.1.8
Date: 2021-11-03
Authors@R: c(
  person("Erle", "Holgersen", role = "aut"),
  person("Olivia", "Leavy", role = "aut"),
  person("Olivia", "Fletcher", role = "aut"),
  person("Frank", "Dudbridge", role = "aut"),
  person("Syed", "Haider", role = c("aut", "cre"), email = "Syed.Haider@icr.ac.uk")
  )
Author: Erle Holgersen [aut], Olivia Leavy [aut], Olivia Fletcher
        [aut], Frank Dudbridge [aut], Syed Haider [aut, cre]
Maintainer: Syed Haider <Syed.Haider@icr.ac.uk>
Description: Toolkit for processing and calling interactions in capture
        Hi-C data. Converts BAM files into counts of reads linking
        restriction fragments, and identifies pairs of fragments that
        interact more than expected by chance. Significant interactions
        are identified by comparing the observed read count to the
        expected background rate from a count regression model.
Depends: R (>= 3.5.0), gamlss.tr, gamlss, data.table
License: GPL-2
Encoding: UTF-8
LazyData: true
biocViews:
Imports: MASS, stats, foreach, doParallel, iterators, bedr, knitr,
        rmarkdown
SystemRequirements: bedtools
Suggests: testthat, GenomicInteractions, GenomicRanges, Gviz, countreg
Additional_repositories: http://R-Forge.R-project.org/
VignetteBuilder: knitr
RoxygenNote: 7.1.1
NeedsCompilation: no
Packaged: 2026-10-08 11:02:46 UTC; root
Config/pak/sysreqs: cmake make libuv1-dev
Repository: https://syedhaider5.r-universe.dev
Date/Publication: 2021-11-06 14:00:16 UTC
RemoteUrl: https://github.com/cran/chicane
RemoteRef: HEAD
RemoteSha: a6c7fced08336275e6c339192518e05af0954c7a