Files in hms-dbmi/scde
Single Cell Differential Expression
.gitignore
.travis.yml
CHANGELOG.md
DESCRIPTION
NAMESPACE
R/functions.R
README.md
data/es.mef.small.rda
data/knn.rda
data/o.ifm.rda
data/pollen.rda
data/scde.edff.rda
inst/NEWS
inst/diffexp.Rmd
inst/diffexp.md
inst/experimental.Rmd
inst/experimental.md
inst/figures/PAGODA.gif
inst/figures/experimental-data-1.png
inst/figures/experimental-pagoda-1.png
inst/figures/pagoda-Screen_Shot_2015-06-07_at_4.53.46_PM.png
inst/figures/pagoda-cell.model.fits-0.png
inst/figures/pagoda-clusterPCA-1.png
inst/figures/pagoda-controlForCellCycle-1.png
inst/figures/pagoda-correlatedCollapse-1.png
inst/figures/pagoda-showTopPathwayGenes-1.png
inst/figures/pagoda-tSNE-1.png
inst/figures/pagoda-topPathways-1.png
inst/figures/pagoda-topPathways2-1.png
inst/figures/pagoda-varnorm-1.png
inst/figures/pagoda-viewAspects-1.png
inst/figures/scde-batch-1.png
inst/figures/scde-detailed4-1.png
inst/figures/scde-diffexp3-1.png
inst/genesets.Rmd
inst/genesets.md
inst/pagoda.Rmd
inst/pagoda.md
inst/scde-manual.pdf
license.txt
man/ViewPagodaApp-class.Rd
man/bwpca.Rd
man/clean.counts.Rd
man/clean.gos.Rd
man/es.mef.small.Rd
man/knn.Rd
man/knn.error.models.Rd
man/make.pagoda.app.Rd
man/o.ifm.Rd
man/pagoda.cluster.cells.Rd
man/pagoda.effective.cells.Rd
man/pagoda.gene.clusters.Rd
man/pagoda.pathway.wPCA.Rd
man/pagoda.reduce.loading.redundancy.Rd
man/pagoda.reduce.redundancy.Rd
man/pagoda.show.pathways.Rd
man/pagoda.subtract.aspect.Rd
man/pagoda.top.aspects.Rd
man/pagoda.varnorm.Rd
man/pagoda.view.aspects.Rd
man/papply.Rd
man/pollen.Rd
man/scde.Rd
man/scde.browse.diffexp.Rd
man/scde.edff.Rd
man/scde.error.models.Rd
man/scde.expression.difference.Rd
man/scde.expression.magnitude.Rd
man/scde.expression.prior.Rd
man/scde.failure.probability.Rd
man/scde.fit.models.to.reference.Rd
man/scde.posteriors.Rd
man/scde.test.gene.expression.difference.Rd
man/show.app.Rd
man/view.aspects.Rd
man/winsorize.matrix.Rd
src/Makevars
src/Makevars.win
src/bwpca.cpp
src/bwpca.h
src/jpmatLogBoot.cpp
src/jpmatLogBoot.h
src/matSlideMult.cpp
src/matSlideMult.h
src/pagoda.cpp
src/pagoda.h
tests/tests.R
vignettes/diffexp.Rmd
vignettes/pagoda.Rmd
web/additional.css
web/pagoda.png
web/pathcl.css
web/pathcl.js
web/pathcl_canvas.js
web/pathcl_canvas_1.1.js
