Package: scRNAtools 1.0
Qian Yang
scRNAtools: Single Cell RNA Sequencing Data Analysis Tools
We integrated the common analysis methods utilized in single cell RNA sequencing data, which included cluster method, principal components analysis (PCA), the filter of differentially expressed genes, pathway enrichment analysis and correlated analysis methods.
Authors:
scRNAtools_1.0.tar.gz
scRNAtools_1.0.tar.gz(r-4.5-noble)scRNAtools_1.0.tar.gz(r-4.4-noble)
scRNAtools_1.0.tgz(r-4.4-emscripten)scRNAtools_1.0.tgz(r-4.3-emscripten)
scRNAtools.pdf |scRNAtools.html✨
scRNAtools/json (API)
| # Install 'scRNAtools' in R: |
| install.packages('scRNAtools', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 6 years agofrom:1ebaa15d9e. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 22 2024 |
| R-4.5-linux | OK | Dec 22 2024 |
Exports:scRNAtools_clusterscRNAtools_cor_mapscRNAtools_cor_map_rscRNAtools_DEGsAscRNAtools_Gene2exp_1scRNAtools_Gene3exp_1scRNAtools_GeneexpscRNAtools_Geneexp_1scRNAtools_inter_netscRNAtools_pcascRNAtools_pca_3DscRNAtools_PEAscRNAtools_tsne
Dependencies:ALLbackportsbase64encBiobaseBiocGenericsbitbit64bitopsbroombslibcachemcheckmateclicliprclustercodetoolscolorspaceConsensusClusterPluscorrplotcpp11crayondata.tabledigestdplyredgeRevaluatefansifarverfastmapfontawesomeforcatsforeachforeignFormulafsgeeMgeepackgenericsggformulaggplot2ggridgesggthemesglmnetgluegridExtragtablehavenhighrHmischmshtmlTablehtmltoolshtmlwidgetsigraphisobanditeratorsjquerylibjsonlitekinship2knitrlabelinglabelledlatticelifecyclelimmalocfitmagrittrMASSMatrixmemoiseMESSmgcvmimemosaicCoremunsellmvtnormnlmennetPerformanceAnalyticspillarpkgconfigplyrprettyunitsprogresspurrrquadprogR6rappdirsRColorBrewerRcppRcppArmadilloRcppEigenRCurlreadrreshape2rlangrmarkdownRmiscrpartrstudioapiRtsnesassscalesscatterplot3dshapestatmodstringistringrsurvivaltibbletidyrtidyselecttinytexTPEAtzdbutf8vctrsviridisviridisLitevroomwithrxfunXMLxtsyamlzoo
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Single Cell RNA Sequencing Data Analysis Tools | scRNAtools-package |
| correlation index | corr_re |
| Users interested genes or differentially expressed genes | DEGs |
| exam | exam |
| exam1 | exam1 |
| example | example |
| example1 | example1 |
| Cluster section | scRNAtools_cluster |
| Correlation analysis | scRNAtools_cor_map |
| Present correlation index in figure | scRNAtools_cor_map_r |
| Identification of differentially expressed genes | scRNAtools_DEGsA |
| Present the expression of two genes | scRNAtools_Gene2exp_1 |
| Present gene expression | scRNAtools_Gene3exp_1 |
| Expressed genes in scRNA sequencing data | scRNAtools_Geneexp |
| Present gene expression | scRNAtools_Geneexp_1 |
| Construction of interactive network in scRNA sequencing data | scRNAtools_inter_net |
| PCA analysis | scRNAtools_pca |
| 3D PCA analysis | scRNAtools_pca_3D |
| Pathway enrichment analysis | scRNAtools_PEA |
| t-SNE analysis | scRNAtools_tsne |
| types | types |
| types_all | types_all |