Package: idr2d
Title: Irreproducible Discovery Rate for Genomic Interactions Data
Version: 1.22.0
Authors@R: 
    c(person(given = "Konstantin",
             family = "Krismer",
             role = c("aut", "cre", "cph"),
             email = "krismer@mit.edu",
             comment = c(ORCID = "0000-0001-8994-3416")),
      person(given = "David",
             family = "Gifford",
             role = c("ths", "cph"),
             email = "gifford@mit.edu",
             comment = c(ORCID = "0000-0003-1709-4034")))
Description: A tool to measure reproducibility between genomic experiments
    that produce two-dimensional peaks (interactions between peaks), such
    as ChIA-PET, HiChIP, and HiC. idr2d is an extension of the original
    idr package, which is intended for (one-dimensional) ChIP-seq peaks.
License: MIT + file LICENSE
URL: https://idr2d.mit.edu
Depends: R (>= 3.6)
Imports: dplyr (>= 0.7.6), futile.logger (>= 1.4.3), GenomeInfoDb (>=
        1.14.0), GenomicRanges (>= 1.30), ggplot2 (>= 3.1.1),
        grDevices, grid, idr (>= 1.2), IRanges (>= 2.18.0), magrittr
        (>= 1.5), methods, reticulate (>= 1.13), scales (>= 1.0.0),
        stats, stringr (>= 1.3.1), utils
Suggests: DT (>= 0.4), htmltools (>= 0.3.6), knitr (>= 1.20), rmarkdown
        (>= 1.10), roxygen2 (>= 6.1.0), testthat (>= 2.1.0)
VignetteBuilder: knitr
biocViews: DNA3DStructure, GeneRegulation, PeakDetection, Epigenetics,
        FunctionalGenomics, Classification, HiC
Encoding: UTF-8
RoxygenNote: 7.1.0
SystemRequirements: Python (>= 3.5.0), hic-straw
git_url: https://git.bioconductor.org/packages/idr2d
git_branch: RELEASE_3_21
git_last_commit: fd9d6dd
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.21
Date/Publication: 2025-04-15
NeedsCompilation: no
Packaged: 2025-04-16 01:22:28 UTC; biocbuild
Author: Konstantin Krismer [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0001-8994-3416>),
  David Gifford [ths, cph] (ORCID:
    <https://orcid.org/0000-0003-1709-4034>)
Maintainer: Konstantin Krismer <krismer@mit.edu>
Built: R 4.5.0; ; 2025-04-16 14:41:06 UTC; windows
