Package: IntrinsicScan
Type: Package
Title: Label-Blind Feature-Wise Intrinsic Binary Partition Scanning
Version: 0.99.4
Authors@R: c(
    person(
        "Leandro", "Altare",
        email = "memedesimo22@gmail.com",
        role = c("aut", "cre"),
        comment = c(ORCID = "0009-0004-5861-8679")
    )
    )
Description: Scans continuous molecular features for intrinsic binary partitions
    without using phenotype labels to determine the split. For each feature,
    observations are divided into two one-dimensional states by selecting the
    split that minimizes the total within-state L1 loss, defined here as the sum
    of absolute distances between each observation and the medoid of its assigned
    state. Thus, unlike a squared-error objective, deviations are measured
    according to their absolute magnitude rather than being squared. Binary phenotype
    labels are used only after the partition is fixed to orient the two states,
    quantify phenotype concordance using orientation-free Youden J, perform exact
    conditional inference, and optionally assess resampling stability or
    fixed-partition permutation calibration. The method is intended for
    preprocessed continuous omics measurements and does not imply that a fitted
    partition represents true biological bimodality or discrete biological
    states.
License: MIT + file LICENSE
Encoding: UTF-8
Depends: R (>= 4.6.0)
Imports: Biobase, S4Vectors, SummarizedExperiment, withr
Suggests: BiocStyle, knitr, rmarkdown, leukemiasEset, testthat (>=
        3.0.0)
VignetteBuilder: knitr
Config/testthat/edition: 3
biocViews: GeneExpression, Microarray, RNASeq, Classification,
        Clustering
URL: https://github.com/memedesimo98/IntrinsicScan
BugReports: https://github.com/memedesimo98/IntrinsicScan/issues
Roxygen: list(markdown = TRUE)
Config/roxygen2/version: 8.1.1
git_url: https://git.bioconductor.org/packages/IntrinsicScan
git_branch: devel
git_last_commit: 8c2ac4e
git_last_commit_date: 2026-10-10
Repository: Bioconductor 3.24
Date/Publication: 2026-10-13
NeedsCompilation: no
Packaged: 2026-10-13 22:25:57 UTC; biocbuild
Author: Leandro Altare [aut, cre] (ORCID:
    <https://orcid.org/0009-0004-5861-8679>)
Maintainer: Leandro Altare <memedesimo22@gmail.com>
