Files in MAST
Model-based Analysis of Single Cell Transcriptomics

NEWS.md

.travis.yml

_pkgdown.yml

README.md

NAMESPACE

DESCRIPTION

build/vignette.rds

data/maits.RData

data/vbetaFA.RData

data/vbeta.RData

data/predicted_sig.RData

R/lrtest.R R/Readers.R R/ZlmFit-logFC.R R/zlmHooks.R R/AllGenerics.R R/ZlmFit.R R/filterEval.R R/UtilityFunctions.R R/LmWrapper.R R/ebayes-helpers.R R/lmWrapper-glmer.R R/lmWrapper-bayesglm.R R/Hypothesis.R R/bayesglm.R R/lmWrapper-glm.R R/AllClasses.R R/helper-methods.R R/CovFromBoots.R R/MAST-package.R R/MultidimensionalScaling.R R/thresholdSCRNA.R R/lmWrapper-ridge.R R/SingleCellAssay-methods.R R/RNASeqAssay-methods.R R/zeroinf.R R/stat_ell.R R/Fluidigm-methods.R R/predict.R R/ZlmFit-bootstrap.R R/GSEA-by-boot.R R/convertMASTClassic.R

docs/index.html

docs/pkgdown.yml

docs/docsearch.js

docs/docsearch.css

docs/authors.html

docs/pkgdown.js

docs/link.svg

docs/jquery.sticky-kit.min.js

docs/pkgdown.css

docs/articles/index.html

docs/articles/framed.sty

docs/articles/symbols.tex

docs/articles/MAITAnalysis.html

docs/articles/MAST-Intro.html

docs/articles/MAST-intro.Rnw

docs/articles/MAST-interoperability.html

docs/articles/MAST-intro.rel

docs/articles/figure/advancedArmExample-1.pdf docs/articles/figure/tests-1.pdf docs/articles/figure/burdenOfFiltering-1.pdf docs/articles/figure/splitbyncells-1.pdf docs/articles/figure/zlmExample-1.pdf

docs/articles/MAST-interoperability_files/figure-html/scaterQC-2.png

docs/articles/MAST-interoperability_files/figure-html/scaterQC-1.png

docs/articles/MAST-interoperability_files/figure-html/unnamed-chunk-2-1.png

docs/articles/MAST-Intro_files/figure-html/tests-1.png

docs/articles/MAST-Intro_files/figure-html/zlmExample-1.png

docs/articles/MAST-Intro_files/figure-html/advancedArmExample-1.png

docs/articles/MAST-Intro_files/figure-html/splitbyncells-1.png

docs/articles/MAST-Intro_files/figure-html/burdenOfFiltering-1.png

docs/reference/stat_ell-6.png

docs/reference/GSEATests-class.html

docs/reference/hushWarning.html

docs/reference/read.fluidigm.html

docs/reference/LMERlike-class.html

docs/reference/index.html

docs/reference/getConcordance.html

docs/reference/gseaAfterBoot.html

docs/reference/lrTest-ZlmFit-character-method.html

docs/reference/primerAverage.html

docs/reference/condmean.html

docs/reference/expavg.html

docs/reference/xform.html

docs/reference/zlm.SingleCellAssay.html

docs/reference/invlogit.html

docs/reference/fit.html

docs/reference/print.summaryZlmFit.html

docs/reference/removeResponse.html

docs/reference/computeEtFromCt.html

docs/reference/summary-GSEATests-method.html

docs/reference/predict.ZlmFit.html

docs/reference/collectResiduals.html

docs/reference/thresholdSCRNACountMatrix-1.png

docs/reference/zlm.html

docs/reference/mast_filter-1.png

docs/reference/LMlike-class.html

docs/reference/GLMlike-class.html

docs/reference/featureData-methods.html

docs/reference/numexp.html

docs/reference/lrTest.html

docs/reference/MAST-package.html

docs/reference/melt.SingleCellAssay.html

docs/reference/show.html

docs/reference/filterLowExpressedGenes.html

docs/reference/convertMASTClassicToSingleCellAssay.html

docs/reference/plotSCAConcordance-7.png

docs/reference/vbeta-dataset.html

docs/reference/Hypothesis.html

docs/reference/dof.html

docs/reference/logFC.html

docs/reference/model.matrix-set.html

docs/reference/stat_ell-1.png

docs/reference/SceToSingleCellAssay.html

docs/reference/fData-methods.html

docs/reference/predicted_sig-dataset.html

docs/reference/summarize.html

docs/reference/model.matrix.html

docs/reference/freq.html

docs/reference/se.coef.html

docs/reference/plotSCAConcordance-1.png

docs/reference/waldTest-ZlmFit-matrix-method.html

docs/reference/summary.thresholdSCRNACountMatrix.html

docs/reference/ZlmFit-class.html

docs/reference/vbetaFA-dataset.html

docs/reference/plot.thresholdSCRNACountMatrix.html

docs/reference/stat_ell.html

docs/reference/getwellKey.html

docs/reference/CovFromBoots.html

docs/reference/FromFlatDF.html

docs/reference/mast_filter.html

docs/reference/thresholdSCRNACountMatrix-13.png

docs/reference/calcZ.html

docs/reference/thresholdSCRNACountMatrix.html

docs/reference/myBiplot.html

docs/reference/BayesGLMlike-class.html

docs/reference/influence.bayesglm.html

docs/reference/LRT.html

docs/reference/ebayes.html

docs/reference/defaultAssay.html

docs/reference/plotlrt.html

docs/reference/rstandard.bayesglm.html

docs/reference/subset-SingleCellAssay-method.html

docs/reference/pbootVcov1.html

docs/reference/FromMatrix.html

docs/reference/plotSCAConcordance.html

docs/reference/split-SingleCellAssay-character-method.html

docs/reference/waldTest.html

docs/reference/filter-6.png

docs/reference/colData-set-SingleCellAssay-DataFrame-method.html

docs/reference/cData.html

docs/reference/impute.html

docs/reference/logmean.html

docs/reference/condSd.html

docs/reference/filter.html

docs/reference/applyFlat.html

docs/reference/filter-4.png

docs/reference/mast_filter-2.png

docs/reference/maits-dataset.html

docs/reference/summary-ZlmFit-method.html

docs/reference/bootVcov1.html

docs/reference/defaultPrior.html

docs/reference/Drop.html

vignettes/MAITAnalysis.Rmd

vignettes/mastintro.bib

vignettes/MAST-interoperability.Rmd

vignettes/mast-interopt.bib

vignettes/MAST-intro.tex

vignettes/symbols.tex

tests/testthat/SingleCellAssay-Object-MASTClassic.RData

tests/testthat/test-GSEA-by-boot.R tests/testthat/test-lmWrapper-glmer.R

inst/NEWS

inst/doc/MAITAnalysis.Rmd inst/doc/MAST-interoperability.Rmd inst/doc/MAITAnalysis.R

inst/doc/MAITAnalysis.html

inst/doc/MAST-Intro.Rmd

inst/doc/MAST-Intro.html

inst/doc/MAST-Intro.R inst/doc/MAST-interoperability.R

inst/doc/MAST-interoperability.html

inst/extdata/BTM_for_GSEA_20131008.gmt

MAST documentation built on Nov. 8, 2020, 8:19 p.m.

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MAST
Model-based Analysis of Single Cell Transcriptomics

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Model-based Analysis of Single Cell Transcriptomics

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MAST Model-based Analysis of Single Cell Transcriptomics

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MAST
Model-based Analysis of Single Cell Transcriptomics

Files in MAST
Model-based Analysis of Single Cell Transcriptomics