Package: scTensor 2.23.0

Koki Tsuyuzaki

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

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

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

scTensor_2.23.0.tar.gz
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scTensor_2.23.0.tgz(r-4.6-any)scTensor_2.23.0.tgz(r-4.5-any)
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scTensor_2.23.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
scTensor/json (API)
NEWS

# Install 'scTensor' in R:

install.packages('scTensor', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

GermMale - The matrix which is used as test data of scTensor.
labelGermMale - The vector contains the celltype information and color scheme of GermMale
m - The gene-wise mean vector of Quartz-Seq data.
tsneGermMale - The result of Rtsne against GermMale
v - The gene-wise variance vector of Quartz-Seq data.

On BioConductor:scTensor-2.23.0(bioc 3.24)scTensor-2.22.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

dimensionreduction singlecell software geneexpression

4.18 score 2 scripts 334 downloads 1 mentions 8 exports 222 dependencies

Last updated from:8da1a464dc. Checks:1 ERROR, 7 WARNING, 2 OK. Indexed: yes.

Target	Result	Time
bioc-checks	ERROR	441
linux-devel-x86_64	WARNING	726
source / vignettes	OK	531
linux-release-x86_64	WARNING	717
macos-release-arm64	WARNING	406
macos-oldrel-arm64	WARNING	282
windows-devel	WARNING	1130
windows-release	WARNING	715
windows-oldrel	WARNING	1089
wasm-release	OK	381

Exports:cellCellDecomp cellCellRanks cellCellReport cellCellSetting cellCellSimulate getParam newCCSParams setParam<-

Dependencies:abind annotate AnnotationDbi AnnotationForge AnnotationHub ape aplot askpass assertthat backports base64enc BH Biobase BiocBaseUtils BiocFileCache BiocGenerics BiocManager BiocStyle BiocVersion Biostrings bit bit64 bitops blob bookdown bslib ca cachem callr Category ccTensor checkmate class classInt cli cluster codetools colorspace commonmark concaveman cpp11 crayon crosstalk curl data.table DBI dbplyr DelayedArray dendextend digest dir.expiry DOSE dotCall64 dplyr e1071 egg enrichit enrichplot entropy evaluate farver fastmap fdrtool fields filelock fontawesome fontBitstreamVera fontLiberation fontquiver foreach fs gclus gdtools genefilter generics GenomicRanges ggforce ggfun ggiraph ggnewscale ggplot2 ggplotify ggraph ggrepel ggtangle ggtree glue GO.db GOSemSim GOstats graph graphite graphlayouts gridExtra gridGraphics GSEABase gson gtable heatmaply hexbin highr htmltools htmlwidgets httr httr2 igraph IRanges isoband iterators jquerylib jsonlite KEGGREST KernSmooth knitr labeling later lattice lazyeval lifecycle litedown magrittr maps markdown MASS Matrix MatrixGenerics matrixStats memoise MeSHDbi meshr mgcv mime misc3d nlme nnTensor openssl otel outliers patchwork permute pillar pkgconfig plot3D plotly plotrix plyr png polyclip processx promises proxy ps purrr qap R6 RANN rappdirs RBGL RColorBrewer Rcpp RcppArmadillo RcppEigen RCurl reactome.db ReactomePA registry reshape2 Rgraphviz rlang rmarkdown RSpectra RSQLite rTensor s2 S4Arrays S4Vectors S7 sass scales scatterpie schex Seqinfo seriation sf SingleCellExperiment spam SparseArray stringi stringr SummarizedExperiment survival sys systemfonts tagcloud tibble tidydr tidygraph tidyr tidyselect tidytree tinytex treeio TSP tweenr units utf8 V8 vctrs vegan Vicus viridis viridisLite visNetwork webshot withr wk xfun XML xtable XVector yaml yulab.utils