Package: scTensor 2.15.0

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]

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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-2.15.0(bioc 3.20)scTensor-2.14.0(bioc 3.19)

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

bioconductor-package

8 exports 0.61 score 223 dependencies 1 mentions

Last updated 2 months agofrom:29f39d99ac

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

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