Package: scPipeline 0.2.0.0

scPipeline: A Wrapper for 'Seurat' and Related R Packages for End-to-End Single Cell Analysis

Reports markers list, differentially expressed genes, associated pathways, cell-type annotations, does batch correction and other related single cell analyses all wrapped within 'Seurat'.

Authors:Viswanadham Sridhara [aut, cre]

scPipeline_0.2.0.0.tar.gz


scPipeline_0.2.0.0.tar.gz(r-4.5-noble)scPipeline_0.2.0.0.tar.gz(r-4.4-noble)
scPipeline_0.2.0.0.tgz(r-4.4-emscripten)
scPipeline.pdf |scPipeline.html
scPipeline/json (API)
NEWS

# Install 'scPipeline' in R:
install.packages('scPipeline', repos = c('https://sridhara-omics.r-universe.dev', 'https://cloud.r-project.org'))

On CRAN:

Conda:

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

2.70 score 7 exports 216 dependencies

Last updated 4 days agofrom:707dfc8239. Checks:3 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKMar 08 2025
R-4.5-linuxOKMar 08 2025
R-4.4-linuxOKMar 08 2025

Exports:AnnotateCellsWithSingleRConvertGeneIdentifiersReactomeDataSeuratLowDimSeuratMarkersSeuratPreprocessTransferAnnotations

Dependencies:abindalabaster.basealabaster.matrixalabaster.rangesalabaster.schemasalabaster.seAnnotationDbiAnnotationHubaskpassassortheadbase64encbatchelorbeachmatBHBiobaseBiocFileCacheBiocGenericsBiocManagerBiocNeighborsBiocParallelBiocSingularBiocVersionbiomaRtBiostringsbitbit64bitopsblobbslibcachemcaToolscelldexcliclustercodetoolscolorspacecommonmarkcowplotcpp11crayoncrosstalkcurldata.tableDBIdbplyrDelayedArrayDelayedMatrixStatsdeldirdigestdotCall64dplyrdqrngevaluateExperimentHubfansifarverfastDummiesfastmapfilelockfitdistrplusFNNfontawesomeformatRfsfutile.loggerfutile.optionsfuturefuture.applygenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2ggrepelggridgesglobalsgluegoftestgplotsgridExtragtablegtoolsgypsumh5mreadHDF5Arrayherehighrhmshtmltoolshtmlwidgetshttpuvhttrhttr2icaigraphIRangesirlbaisobandjquerylibjsonlitejsonvalidateKEGGRESTKernSmoothknitrlabelinglambda.rlaterlatticelazyevalleidenbaselifecyclelistenvlmtestmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimeminiUImunsellnlmeopensslparallellypatchworkpbapplypillarpkgconfigplogrplotlyplyrpngpolyclipprettyunitsprogressprogressrpromisespurrrR6RANNrappdirsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppHNSWRcppProgressRcppTOMLReactomeGSAreshape2ResidualMatrixreticulaterhdf5rhdf5filtersRhdf5librlangrmarkdownROCRrprojrootRSpectraRSQLitersvdRtsneS4ArraysS4VectorssassScaledMatrixscalesscattermoresctransformscuttleSeuratSeuratObjectshinySingleCellExperimentSingleRsitmosnowsourcetoolsspspamSparseArraysparseMatrixStatsspatstat.dataspatstat.explorespatstat.geomspatstat.randomspatstat.sparsespatstat.univarspatstat.utilsstringistringrSummarizedExperimentsurvivalsystensortibbletidyrtidyselecttinytexUCSC.utilsutf8uwotV8vctrsviridisLitewithrxfunxml2xtableXVectoryamlzoo

Seurat_processing

Rendered fromSeurat_processing.Rmdusingknitr::rmarkdownon Mar 08 2025.

Last update: 2025-03-07
Started: 2025-03-07