Package: scDblFinder 1.19.1

Pierre-Luc Germain

scDblFinder: scDblFinder

The scDblFinder package gathers various methods for the detection and handling of doublets/multiplets in single-cell sequencing data (i.e. multiple cells captured within the same droplet or reaction volume). It includes methods formerly found in the scran package, the new fast and comprehensive scDblFinder method, and a reimplementation of the Amulet detection method for single-cell ATAC-seq.

Authors:Pierre-Luc Germain [cre, aut], Aaron Lun [ctb]

scDblFinder_1.19.1.tar.gz
scDblFinder_1.19.1.zip(r-4.5)scDblFinder_1.19.1.zip(r-4.4)scDblFinder_1.19.1.zip(r-4.3)
scDblFinder_1.19.1.tgz(r-4.4-any)scDblFinder_1.19.1.tgz(r-4.3-any)
scDblFinder_1.19.1.tar.gz(r-4.5-noble)scDblFinder_1.19.1.tar.gz(r-4.4-noble)
scDblFinder_1.19.1.tgz(r-4.4-emscripten)scDblFinder_1.19.1.tgz(r-4.3-emscripten)
scDblFinder.pdf |scDblFinder.html✨
scDblFinder/json (API)
NEWS

Peer review:

Bug tracker:https://github.com/plger/scdblfinder/issues

On BioConductor:scDblFinder-1.19.0(bioc 3.20)scDblFinder-1.18.0(bioc 3.19)

bioconductor-package

26 exports 1.80 score 121 dependencies 1 dependents 7 mentions

Last updated 21 days agofrom:0e18b68b1e

Exports:addDoubletsaggregateFeaturesamuletamuletFromCountsclamuletclusterStickinesscomputeDoubletDensitycreateDoubletscxds2directDblClassificationdoubletPairwiseEnrichmentdoubletThresholdingfastclusterfindDoubletClustersgetArtificialDoubletsgetCellPairsgetExpectedDoubletsgetFragmentOverlapsmockDoubletSCEplotDoubletMapplotThresholdspropHomotypicrecoverDoubletsscDblFinderselFeaturesTFIDF

Dependencies:abindaskpassbeachmatbeeswarmBHBiobaseBiocGenericsBiocIOBiocNeighborsBiocParallelBiocSingularBiostringsbitopsblusterCairocliclustercodetoolscolorspacecpp11crayoncurldata.tableDelayedArrayDelayedMatrixStatsdqrngedgeRfansifarverFNNformatRfutile.loggerfutile.optionsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicRangesggbeeswarmggplot2ggrastrggrepelgluegridExtragtablehttrigraphIRangesirlbaisobandjsonlitelabelinglambda.rlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmetapodmgcvmimemunsellnlmeopensslpheatmappillarpkgconfigpngR6raggRColorBrewerRcppRcppAnnoyRcppEigenRcppHNSWRcppMLRcppProgressRCurlrestfulrRhtslibrjsonrlangRsamtoolsRSpectrarsvdrtracklayerRtsneS4ArraysS4VectorsScaledMatrixscalesscaterscranscuttleSingleCellExperimentsitmosnowSparseArraysparseMatrixStatsstatmodSummarizedExperimentsyssystemfontstextshapingtibbleUCSC.utilsutf8uwotvctrsviporviridisviridisLitewithrxgboostXMLXVectoryamlzlibbioc