DOI: 10.18129/B9.bioc.weitrix    

This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see weitrix.

Weighted matrix manipulation, finding components of variation with weighted or sparse data

Bioconductor version: 3.11

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 by scaling weights row-wise to account for known predictors of precision. 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.

Author: Paul Harrison [aut, cre]

Maintainer: Paul Harrison <paul.harrison at monash.edu>

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biocViews DataRepresentation, DimensionReduction, GeneExpression, RNASeq, Regression, SingleCell, Software, Transcriptomics
Version 1.0.0
In Bioconductor since BioC 3.11 (R-4.0) (0.5 years)
License LGPL-2.1 | file LICENSE
Depends R (>= 4.0), SummarizedExperiment
Imports methods, utils, stats, assertthat, S4Vectors, DelayedArray, DelayedMatrixStats, BiocParallel, BiocGenerics, limma, dplyr, purrr, ggplot2, scales, reshape2, RhpcBLASctl
Suggests knitr, rmarkdown, tidyverse, airway, edgeR, topconfects, EnsDb.Hsapiens.v86, org.Sc.sgd.db, AnnotationDbi, testthat (>= 2.1.0)
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Source Package weitrix_1.0.0.tar.gz
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