Package: AlveolarCellTypeDeconvolution 0.1.0

AlveolarCellTypeDeconvolution: DNA methylome-based validation of induced sputum as an effective protocol to study lung immunity: construction of a classifier of pulmonary cell types

Scripts and analyses for alveolar cell type deconvolution.

Authors:Jyotirmoy Das [aut, cre]

AlveolarCellTypeDeconvolution_0.1.0.tar.gz
AlveolarCellTypeDeconvolution_0.1.0.zip(r-4.7)AlveolarCellTypeDeconvolution_0.1.0.zip(r-4.6)AlveolarCellTypeDeconvolution_0.1.0.zip(r-4.5)
AlveolarCellTypeDeconvolution_0.1.0.tgz(r-4.6-any)AlveolarCellTypeDeconvolution_0.1.0.tgz(r-4.5-any)
AlveolarCellTypeDeconvolution_0.1.0.tar.gz(r-4.7-any)AlveolarCellTypeDeconvolution_0.1.0.tar.gz(r-4.6-any)
AlveolarCellTypeDeconvolution_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
AlveolarCellTypeDeconvolution/json (API)

# Install 'AlveolarCellTypeDeconvolution' in R:
install.packages('AlveolarCellTypeDeconvolution', repos = c('https://jd2112.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/jd2112/alveolar-cell-type-deconvolution/issues

On CRAN:

Conda:

alveolar-lymphocytesalveolar-macrophagescd3cell-deconvolutiondna-methylationhla-dr

2.00 score 1 stars 0 exports 352 dependencies

Last updated from:dae5d82823. Checks:7 WARNING, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-x86_64WARNING1184
source / vignettesOK1573
linux-release-x86_64WARNING1384
macos-release-arm64WARNING1189
macos-oldrel-arm64WARNING851
windows-develWARNING1024
windows-releaseWARNING1045
windows-oldrelWARNING977
wasm-releaseOK1381

Exports:

Dependencies:abindaffyaffyioannotateAnnotationDbiAnnotationFilterAnnotationHubapeaplpackaskpassassortheadbackportsbase64base64encbeachmatbeanplotBHBiasedUrnBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiocIObiocmakeBiocManagerBiocParallelBiocVersionbiomaRtBiostringsbiovizBasebitbit64bitopsblobbootbroomBSgenomebslibbsseqbumphuntercachemcallrcarcarDatacaretcellrangerChAMPChAMPdatacheckmatecigarilloclassclicliprclockclueclustercodetoolscolorspacecombinatcommonmarkconflictedcorpcorcorrplotcowplotcpp11crayoncrosstalkcurldata.tableDBIdbplyrDelayedArrayDelayedMatrixStatsdeldirdendextendDerivdiagramdichromatdigestdir.expiryDMRcateDNAcopydoBydoParalleldoRNGdplyrDTdtplyre1071edgeRensembldbEpiDISHevaluateExperimentHubextrafontextrafontdbfarverfastICAfastmapFDb.InfiniumMethylation.hg19filelockfontawesomeforcatsforeachforecastforeignformatRFormulafracdifffsfutile.loggerfutile.optionsfuturefuture.applygarglegenefiltergeneLenDataBasegenericsGenomeInfoDbGenomicAlignmentsGenomicFeaturesGenomicRangesGEOqueryGGallyggplot2ggpointdensityggpubrggrepelggsciggsignifggstatsglobalsglobaltestglueGO.dbgoogledrivegooglesheets4goseqgowergridExtragtablegtoolsGvizh5mreadhardhathavenHDF5ArrayhighrHmischmshrbrthemeshtmlTablehtmltoolshtmlwidgetshttpuvhttrhttr2idsIllumina450ProbeVariants.dbIlluminaHumanMethylation450kanno.ilmn12.hg19IlluminaHumanMethylation450kmanifestIlluminaHumanMethylationEPICanno.ilm10b4.hg19IlluminaHumanMethylationEPICmanifestIlluminaHumanMethylationEPICv2anno.20a1.hg38IlluminaHumanMethylationEPICv2manifestilluminaioimputeinterpipredIRangesisobandisvaiteratorsJADEjpegjquerylibjsonliteKEGGRESTKernSmoothknitrlabelinglambda.rlaterlatticelatticeExtralavalazyevallifecyclelimmalistenvlme4lmtestlocfdrlocfitlubridatelumimagrittrmarrayMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmclustmemoisemethylumimgcvmicrobenchmarkmimeminfiminqamissMethylModelMetricsmodelrmulttestnleqslvnlmenloptrnnetnnlsnor1mixnumDerivopensslorg.Hs.eg.dbotelparallellypatchworkpbkrtestpermutepillarpkgconfigplotlyplyrpngpolynompreprocessCoreprettydocprettyunitspROCprocessxprodlimprogressprogressrpromisesProtGenericsproxypspurrrquadprogquantregqvalueR.methodsS3R.ooR.utilsR6raggrappdirsrbibutilsRColorBrewerRcppRcppArmadilloRcppEigenRCurlRdpackreadrreadxlrecipesRefFreeEWASreformulasrematchrematch2rentrezreprexreshapereshape2restfulrrhdf5rhdf5filtersRhdf5libRhtslibrjsonrlangrmarkdownrngtoolsROCrpartRPMMRsamtoolsRSQLiterstatixrstudioapirtracklayerRttf2pt1ruvrvestS4ArraysS4VectorsS7sassscalesscrimeselectrSeqinfoshapeshinyshinythemessiggenessnowsourcetoolsSparseArraySparseMsparseMatrixStatssparsevctrsSQUAREMstatmodstringistringrSummarizedExperimentsurvivalsvasyssystemfontstextshapingtibbletidyrtidyselecttidyversetimechangetimeDatetinytexTOASTTxDb.Hsapiens.UCSC.hg19.knownGenetxdbmakertzdbUCSC.utilsurcautf8uuidVariantAnnotationvctrsviridisviridisLitevroomwateRmelonwithrxfunXMLxml2xtableXVectoryamlzoo