Files in DeLorean
Estimates Pseudotimes for Single Cell Expression Data
MD5
NEWS.md
LICENSE
DESCRIPTION
README.md
NAMESPACE
configure
inst/WORDLIST
inst/scripts/McDavid-profiles.eps
inst/scripts/Trapnell-2014.Rmd
inst/scripts/McDavid-DeLorean.Rmd
inst/scripts/DeLorean-inference.Rmd
inst/scripts/Windram-Monocle-compare.eps
inst/scripts/DeLorean.bib
inst/scripts/McDavid-Monocle.Rmd
inst/scripts/Windram-DeLorean.Rmd
inst/scripts/fetch-Windram.Rmd
inst/scripts/McDavid-fns.R
inst/scripts/Windram-pseudotime-vs-obfuscated.eps
inst/scripts/DeLorean-Guo.Rmd
inst/scripts/shared.R
inst/scripts/Shalek-DeLorean.Rmd
inst/scripts/Windram-make-plots.Rmd
inst/scripts/Trapnell-2014.md
inst/scripts/complexity.Rmd
inst/scripts/Windram-posterior-cor.eps
inst/scripts/fetch-Shalek-2014.Rmd
inst/scripts/Tang-parse.Rmd
inst/scripts/McDavid-Oscope.Rmd
inst/scripts/config.R
inst/scripts/Guo-rand-proj.Rmd
inst/scripts/DeLorean-intro.Rnw
inst/scripts/Tang-DeLorean.Rmd
inst/scripts/Windram-tau-posterior.eps
inst/scripts/test-smooth-tau.Rmd
inst/scripts/DeLorean-model.Rmd
inst/scripts/DeLorean-Trapnell.Rmd
inst/scripts/Windram-Monocle.Rmd
inst/scripts/parse-Kouno.Rmd
inst/scripts/Kouno-DeLorean.Rmd
inst/doc/DeLorean.html
inst/doc/DeLorean.R
inst/doc/DeLorean.Rmd
inst/include/meta_header.hpp
inst/Rmd/cellsizes.Rmd
inst/Rmd/posterior.Rmd
inst/Rmd/hyper-parameters.Rmd
inst/Rmd/data.Rmd
inst/Rmd/profiles.Rmd
inst/Rmd/foghorn.css
inst/Rmd/convergence.Rmd
inst/extdata/Shalek-2014-Supp-Table-2.csv
inst/extdata/gb-2013-14-10-r118-s3.csv
inst/extdata/Shalek-2014-Supp-Table-3.csv
vignettes/DeLorean.Rmd
R/aov.r
R/package.r
R/zzz.R
R/robustness.r
R/model.r
R/plot.r
R/report.r
R/cell-size.r
R/smoothness.r
R/ordering.r
R/stanmodels.R
R/gp.r
R/data.r
R/held-out.r
src/init.cpp
src/Makevars.win
src/Makevars
src/stan_files/exactsizes.stan
src/stan_files/exact.stan
src/stan_files/lowrank.stan
src/stan_files/lowranksizes.stan
src/stan_files/chunks/license.stan
tools/make_cc.R
man/alpha.for.rug.Rd
man/centralise.Rd
man/make.init.fn.Rd
man/expr.data.plot.Rd
man/marg.like.plot.Rd
man/gp.predict.Rd
man/roughness.of.sample.Rd
man/guo.expr.Rd
man/adjust.by.cell.sizes.Rd
man/cov.calc.dists.Rd
man/roughness.of.permutations.Rd
man/held.out.select.genes.Rd
man/fit.held.out.Rd
man/find.good.ordering.Rd
man/cov.calc.dl.dists.Rd
man/cov.calc.gene.Rd
man/inducing.covariance.Rd
man/gp.log.marg.like.Rd
man/ordering.maximise.Rd
man/make.predictions.Rd
man/tau.offsets.plot.Rd
man/avg.par.samples.Rd
man/orderings.plot.Rd
man/ordering.improve.Rd
man/default.num.cores.Rd
man/plot.add.mean.and.variance.Rd
man/fit.model.Rd
man/cov.all.genes.conditioned.Rd
man/calc.inducing.pseudotimes.Rd
man/optimise.best.sample.Rd
man/pseudotimes.pair.plot.Rd
man/is.de.lorean.Rd
man/partition.de.lorean.Rd
man/gaussian.condition.Rd
man/Rhat.plot.Rd
man/get_model.Rd
man/estimate.hyper.Rd
man/ordering.metropolis.hastings.Rd
man/find.best.tau.Rd
man/print.de.lorean.Rd
man/held.out.melt.Rd
man/windram.expr.Rd
man/roughnesses.plot.Rd
man/roughness.test.Rd
man/test.mh.Rd
man/prepare.for.stan.Rd
man/de.lorean.stylesheet.Rd
man/profiles.plot.Rd
man/filter_genes.Rd
man/plot.de.lorean.Rd
man/held.out.posterior.Rd
man/cov.periodise.Rd
man/ordering.random.block.move.Rd
man/aov.dl.Rd
man/find.smooth.tau.Rd
man/dim.de.lorean.Rd
man/analyse.noise.levels.Rd
man/ordering.invert.Rd
man/pseudotime.plot.Rd
man/ordering.block.move.Rd
man/ordering.test.score.Rd
man/make.fit.valid.Rd
man/knit.report.Rd
man/plot.held.out.posterior.Rd
man/test.fit.Rd
man/ordering.random.move.Rd
man/gene.covariances.Rd
man/plot.add.expr.Rd
man/test.robustness.de.lorean.Rd
man/ordering.is.valid.Rd
man/expected.sample.var.Rd
man/filter_cells.Rd
man/held.out.posterior.join.Rd
man/mutate.profile.data.Rd
man/process.posterior.Rd
man/permute.df.Rd
man/report.file.Rd
man/analyse.variance.Rd
man/cov.matern.32.Rd
man/fit.model.sample.Rd
man/anders.huber.cell.sizes.Rd
man/kouno.expr.Rd
man/held.out.posterior.by.variation.Rd
man/fit.dl.Rd
man/seriation.find.orderings.Rd
man/held.out.posterior.filter.Rd
man/create.ordering.ll.fn.Rd
man/pseudotimes.from.orderings.Rd
man/DeLorean-package.Rd
man/init.orderings.vs.pseudotimes.plot.Rd
man/de.lorean.Rd
man/gp.predictions.df.Rd
man/fit.model.vb.Rd
man/get.posterior.mean.Rd
man/ordering.move.Rd
man/cmp.profiles.plot.Rd
man/examine.convergence.Rd
man/melt.expr.Rd
man/estimate.cell.sizes.Rd
man/cov.calc.gene.conditioned.Rd
man/permuted.roughness.Rd
man/calc.roughness.Rd
build/vignette.rds
tests/testthat.R
tests/testthat/test-guo.r
data/KounoDeLorean.rda
data/WindramDeLorean.rda
data/GuoDeLorean.rda
