Package: AWAggregator
Type: Package
Title: Attribute-Weighted Aggregation
Version: 1.2.0
Authors@R: 
    c(
        person(given = "Jiahua",
            family = "Tan",
            email = "jiahuatan@chem.ubc.ca",
            role = c("aut", "cre"),
            comment = c(ORCID = "0000-0001-5839-1049")
        ),
        person(given = "Gian L.",
            family = "Negri",
            email = "gnegri@bcgsc.ca",
            role = c("aut"),
            comment = c(ORCID = "0000-0001-7722-8888")
        ),
        person(given = "Gregg B.",
            family = "Morin",
            email = "gmorin@bcgsc.ca",
            role = c("aut"),
            comment = c(ORCID = "0000-0001-8949-4374")
        ),
        person(given = "David D. Y.",
            family = "Chen",
            email = "chen@chem.ubc.ca",
            role = c("aut"),
            comment = c(ORCID = "0000-0002-3669-6041")
        )
    )
Description: This package implements an attribute-weighted aggregation
        algorithm which leverages peptide-spectrum match (PSM)
        attributes to provide a more accurate estimate of protein
        abundance compared to conventional aggregation methods. This
        algorithm employs pre-trained random forest models to predict
        the quantitative inaccuracy of PSMs based on their attributes.
        PSMs are then aggregated to the protein level using a weighted
        average, taking the predicted inaccuracy into account.
        Additionally, the package allows users to construct their own
        training sets that are more relevant to their specific
        experimental conditions if desired.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Suggests: AWAggregatorData, BiocStyle, ExperimentHub, knitr, rmarkdown,
        testthat (>= 3.0.0)
Imports: dplyr, Peptides, progress, purrr, ranger, rlang, stats,
        stringr, tidyr, toOrdinal, utils
Depends: R (>= 4.5.0)
biocViews: Software, MassSpectrometry, Preprocessing, Proteomics,
        Regression
BugReports: https://github.com/Tan-Jiahua/AWAggregator/issues
URL: https://github.com/Tan-Jiahua/AWAggregator
VignetteBuilder: knitr
Config/testthat/edition: 3
Config/pak/sysreqs: libicu-dev libssl-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2026-04-28 13:05:17 UTC
RemoteUrl: https://github.com/bioc/AWAggregator
RemoteRef: RELEASE_3_23
RemoteSha: c3c5371a1751e623d87ed678b218d05fd07b1fcb
NeedsCompilation: no
Packaged: 2026-04-29 18:13:07 UTC; root
Author: Jiahua Tan [aut, cre] (ORCID: <https://orcid.org/0000-0001-5839-1049>),
  Gian L. Negri [aut] (ORCID: <https://orcid.org/0000-0001-7722-8888>),
  Gregg B. Morin [aut] (ORCID: <https://orcid.org/0000-0001-8949-4374>),
  David D. Y. Chen [aut] (ORCID: <https://orcid.org/0000-0002-3669-6041>)
Maintainer: Jiahua Tan <jiahuatan@chem.ubc.ca>
Built: R 4.6.0; ; 2026-04-29 19:18:26 UTC; unix
