Package: weitrix
Title: Tools for matrices with precision weights, test and explore
        weighted or sparse data
Version: 1.22.0
Authors@R: person("Paul", "Harrison", email = "paul.harrison@monash.edu", role = c("aut", "cre"), comment=c(ORCID="0000-0002-3980-268X"))
Description: Data type and tools for working with matrices having
        precision weights and missing data. This package provides a
        common representation and tools that can be used with many
        types of high-throughput data. The meaning of the weights is
        compatible with usage in the base R function "lm" and the
        package "limma". Calibrate weights to account for known
        predictors of precision. Find rows with excess variability.
        Perform differential testing and find rows with the largest
        confident differences. Find PCA-like components of variation
        even with many missing values, rotated so that individual
        components may be meaningfully interpreted. DelayedArray
        matrices and BiocParallel are supported.
License: LGPL-2.1 | file LICENSE
Encoding: UTF-8
LazyData: true
Depends: R (>= 3.6), SummarizedExperiment
Imports: methods, utils, stats, grDevices, assertthat, S4Vectors,
        DelayedArray, DelayedMatrixStats, BiocParallel, BiocGenerics,
        limma, topconfects, dplyr, purrr, ggplot2, rlang, scales,
        reshape2, splines, Ckmeans.1d.dp, glm2, RhpcBLASctl
Suggests: knitr, rmarkdown, BiocStyle, tidyverse, airway, edgeR,
        EnsDb.Hsapiens.v86, org.Sc.sgd.db, AnnotationDbi,
        ComplexHeatmap, patchwork, testthat (>= 2.1.0)
RoxygenNote: 7.2.3
VignetteBuilder: knitr
biocViews: Software, DataRepresentation, DimensionReduction,
        GeneExpression, Transcriptomics, RNASeq, SingleCell, Regression
Config/pak/sysreqs: libicu-dev zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 14:59:24 UTC
RemoteUrl: https://github.com/bioc/weitrix
RemoteRef: RELEASE_3_22
RemoteSha: 46b4f6ca06edeef1ec307ee9c776169bd1f41fff
NeedsCompilation: no
Packaged: 2026-01-28 07:30:53 UTC; root
Author: Paul Harrison [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-3980-268X>)
Maintainer: Paul Harrison <paul.harrison@monash.edu>
Built: R 4.5.2; ; 2026-01-28 07:33:53 UTC; windows
