scTensor

This is the development version of scTensor; for the stable release version, see scTensor.

Detection of cell-cell interaction from single-cell RNA-seq dataset by tensor decomposition


Bioconductor version: Development (3.20)

The algorithm is based on the non-negative tucker decomposition (NTD2) of nnTensor.

Author: Koki Tsuyuzaki [aut, cre], Kozo Nishida [aut]

Maintainer: Koki Tsuyuzaki <k.t.the-answer at hotmail.co.jp>

Citation (from within R, enter citation("scTensor")):

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("scTensor")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF
NEWS Text

Details

biocViews DimensionReduction, GeneExpression, SingleCell, Software
Version 2.15.0
In Bioconductor since BioC 3.9 (R-3.6) (5.5 years)
License Artistic-2.0
Depends R (>= 4.1.0)
Imports methods, RSQLite, igraph, S4Vectors, plotly, reactome.db, AnnotationDbi, SummarizedExperiment, SingleCellExperiment, nnTensor (>= 1.1.5), ccTensor (>= 1.0.2), rTensor (>= 1.4.8), abind, plotrix, heatmaply, tagcloud, rmarkdown, BiocStyle, knitr, AnnotationHub, MeSHDbi(>= 1.29.2), grDevices, graphics, stats, utils, outliers, Category, meshr(>= 1.99.1), GOstats, ReactomePA, DOSE, crayon, checkmate, BiocManager, visNetwork, schex, ggplot2
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Suggests testthat, LRBaseDbi, Seurat, scTGIF, Homo.sapiens, AnnotationHub
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary (x86_64) scTensor_2.15.0.zip
macOS Binary (x86_64) scTensor_2.15.0.tgz
macOS Binary (arm64) scTensor_2.15.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/scTensor
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/scTensor
Bioc Package Browser https://code.bioconductor.org/browse/scTensor/
Package Short Url https://bioconductor.org/packages/scTensor/
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