Package: TCA
Type: Package
Title: Tensor Composition Analysis
Version: 1.2.1
Authors@R: c(
    person("Elior", "Rahmani", role=c("aut", "cre"), email = "elior.rahmani@gmail.com"),
    person("Brandon", "Jew", role=c("ctb"))
    )
Description: Tensor Composition Analysis (TCA) allows the deconvolution of two-dimensional data (features by observations) coming from a mixture of heterogeneous sources into a three-dimensional matrix of signals (features by observations by sources). The TCA framework further allows to test the features in the data for different statistical relations with an outcome of interest while modeling source-specific effects; particularly, it allows to look for statistical relations between source-specific signals and an outcome. For example, TCA can deconvolve bulk tissue-level DNA methylation data (methylation sites by individuals) into a three-dimensional tensor of cell-type-specific methylation levels for each individual (i.e. methylation sites by individuals by cell types) and it allows to detect cell-type-specific statistical relations (associations) with phenotypes. For more details see Rahmani et al. (2019) <DOI:10.1038/s41467-019-11052-9>.
License: GPL-3
Encoding: UTF-8
LazyData: true
Imports: config, data.table, futile.logger, gmodels, matrixcalc,
        matrixStats, nloptr, parallel, pbapply, pracma, rsvd, stats,
        quadprog, Matrix
RoxygenNote: 7.1.1
Depends: R (>= 3.5.0)
Suggests: testthat, knitr, rmarkdown
URL: https://www.nature.com/articles/s41467-019-11052-9
BugReports: https://github.com/cozygene/TCA/issues
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2021-02-14 17:40:34 UTC; erahmani
Author: Elior Rahmani [aut, cre],
  Brandon Jew [ctb]
Maintainer: Elior Rahmani <elior.rahmani@gmail.com>
Repository: CRAN
Date/Publication: 2021-02-14 21:50:06 UTC
Built: R 4.6.0; ; 2026-04-26 02:06:56 UTC; unix
