Package: DAseq 1.0.0

Jun Zhao

DAseq: Detecting regions of differential abundance between scRNA-seq datasets

DA-seq is a multiscale approach for detecting DA subpopulations. In contrast to clustering based approaches, our method can detect DA subpopulations that do not form well separated clusters. For each cell, we compute a multiscale differential abundance score measure. These scores are based on the k nearest neighbors in the transcriptome space for various values of k.

Authors:Jun Zhao <[email protected]>

DAseq_1.0.0.tar.gz


DAseq_1.0.0.tar.gz(r-4.4-noble)
DAseq_1.0.0.tgz(r-4.4-emscripten)
DAseq.pdf |DAseq.html
DAseq/json (API)

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

Peer review:

Bug tracker:https://github.com/klugerlab/daseq/issues

Datasets:

On CRAN:

12 exports 37 stars 2.50 score 171 dependencies

Last updated 3 years agofrom:b1f58e0028

Exports:addDAslotgetDAcellsgetDAregionplotCellLabelplotCellScoreplotDAsiterunSTGSeuratLocalMarkersSeuratMarkerFinderSTGlocalMarkersSTGmarkerFinderupdateDAcells

Dependencies:abindaskpassbase64encBHbitopsbslibcachemcaretcaToolsclasscliclockclustercodetoolscolorspacecommonmarkcowplotcpp11crayoncrosstalkcurldata.tabledeldirdiagramdigestdotCall64dplyrdqrnge1071evaluatefansifarverfastDummiesfastmapfitdistrplusFNNfontawesomeforeachfsfuturefuture.applygenericsggplot2ggrepelggridgesglmnetglobalsgluegoftestgowergplotsgridExtragtablegtoolshardhatherehighrhtmltoolshtmlwidgetshttpuvhttricaigraphipredirlbaisobanditeratorsjquerylibjsonliteKernSmoothknitrlabelinglaterlatticelavalazyevalleidenlifecyclelistenvlmtestlubridatemagrittrMASSMatrixmatrixStatsmemoisemgcvmimeminiUIModelMetricsmunsellnlmennetnumDerivopensslparallellypatchworkpbapplypillarpkgconfigplotlyplyrpngpolyclippROCprodlimprogressrpromisesproxypurrrR6RANNrappdirsRColorBrewerRcppRcppAnnoyRcppArmadilloRcppEigenRcppHNSWRcppProgressRcppTOMLrecipesreshape2reticulaterlangrmarkdownROCRrpartrprojrootRSpectraRtsnesassscalesscattermoresctransformSeuratSeuratObjectshapeshinysitmosourcetoolsspspamspatstat.dataspatstat.explorespatstat.geomspatstat.randomspatstat.sparsespatstat.utilsSQUAREMstringistringrsurvivalsystensortibbletidyrtidyselecttimechangetimeDatetinytextzdbutf8uwotvctrsviridisLitewithrxfunxtableyamlzoo