Package: OmicsQC
Type: Package
Title: Nominating Quality Control Outliers in Genomic Profiling Studies
Version: 1.1.1
Authors@R: 
    c(
    person(given = "Anders Hugo",
           family = "Frelin",
           email = "ahfrelin@g.ucla.edu",
           role = c("aut")),
    person(given = "Helen",
           family = "Zhu",
           role = c("aut"),
           email = "helen.zhu@mail.utoronto.ca"),
    person(given = "Paul C.",
           family = "Boutros",
           role = c("aut", "cre"),
           email = "PBoutros@sbpdiscovery.org",
           comment = c(ORCID = "0000-0003-0553-7520"))
    )
Description: A method that analyzes quality control metrics from
        multi-sample genomic sequencing studies and nominates poor
        quality samples for exclusion. Per sample quality control data
        are transformed into z-scores and aggregated. The distribution
        of aggregated z-scores are modelled using parametric
        distributions. The parameters of the optimal model, selected
        either by goodness-of-fit statistics or user-designation, are
        used for outlier nomination. Two implementations of the Cosine
        Similarity Outlier Detection algorithm are provided with
        flexible parameters for dataset customization.
Depends: R (>= 2.10)
Imports: stats, utils, fitdistrplus, lsa, BoutrosLab.plotting.general
Suggests: knitr, rmarkdown, kableExtra, dplyr, testthat (>= 3.0.0)
Config/testthat/edition: 3
License: GPL-2
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
RoxygenNote: 7.2.3
NeedsCompilation: no
Packaged: 2026-07-03 13:07:11 UTC; root
Author: Anders Hugo Frelin [aut], Helen Zhu [aut], Paul C. Boutros
        [aut, cre] (ORCID: <https://orcid.org/0000-0003-0553-7520>)
Maintainer: Paul C. Boutros <PBoutros@sbpdiscovery.org>
Config/pak/sysreqs: libjpeg-dev libpng-dev
Repository: https://pboutros.r-universe.dev
Date/Publication: 2026-01-24 02:26:29 UTC
RemoteUrl: https://github.com/cran/OmicsQC
RemoteRef: HEAD
RemoteSha: b26f8975fe26cfc80a760024ad94b2fbed93f03b