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 (>= 4.5.0)
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
Config/pak/sysreqs: zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-10-10 07:28:35 UTC
RemoteUrl: https://github.com/bioc/IntrinsicScan
RemoteRef: HEAD
RemoteSha: 8c2ac4e72f77bdf1f8d304b69aa0ee56fa47b8f4
NeedsCompilation: no
Packaged: 2026-10-13 19:42:04 UTC; root
Author: Leandro Altare [aut, cre] (ORCID:
    <https://orcid.org/0009-0004-5861-8679>)
Maintainer: Leandro Altare <memedesimo22@gmail.com>