API for JohnReid/DeLorean
Estimates Pseudotimes for Single Cell Expression Data
| Global functions | |
|---|---|
| .onAttach | Source code |
| .onLoad | Source code |
| DeLorean | Man page |
| DeLorean-package | Man page |
| Rhat.plot | Man page Source code |
| adjust.by.cell.sizes | Man page |
| adjust.predictions | Source code |
| alpha.for.rug | Man page Source code |
| analyse.noise.levels | Man page Source code |
| analyse.variance | Man page Source code |
| anders.huber.cell.sizes | Man page Source code |
| aov.dl | Man page Source code |
| avg.par.samples | Man page Source code |
| bind.sample | Source code |
| calc.inducing.pseudotimes | Man page Source code |
| calc.roughness | Man page Source code |
| cast.expr | Source code |
| cell.levels | Source code |
| centralise | Man page Source code |
| check.de.lorean.consistent | Source code |
| cmp.profiles.plot | Man page Source code |
| compile_model_file | Source code |
| cov.all.genes.conditioned | Man page Source code |
| cov.calc.dists | Man page Source code |
| cov.calc.dl.dists | Man page Source code |
| cov.calc.gene | Man page Source code |
| cov.calc.gene.conditioned | Man page Source code |
| cov.fn.for | Source code |
| cov.matern.32 | Man page Source code |
| cov.periodise | Man page Source code |
| create.ordering.ll.fn | Man page Source code |
| de.lorean | Man page Source code |
| de.lorean.stylesheet | Man page Source code |
| deduplicate.orderings | Source code |
| default.num.cores | Man page Source code |
| dim.de.lorean | Man page Source code |
| estimate.cell.sizes | Man page Source code |
| estimate.hyper | Man page Source code |
| even.tau.spread | Source code |
| examine.convergence | Man page Source code |
| expected.sample.var | Man page Source code |
| expr.data.plot | Man page Source code |
| filter_cells | Man page Source code |
| filter_genes | Man page Source code |
| find.best.tau | Man page Source code |
| find.good.ordering | Man page Source code |
| find.smooth.tau | Man page Source code |
| fit.dl | Man page Source code |
| fit.held.out | Man page Source code |
| fit.model | Man page Source code |
| fit.model.sample | Man page Source code |
| fit.model.vb | Man page Source code |
| gaussian.condition | Man page Source code |
| gene.covariances | Man page Source code |
| gene.levels | Source code |
| geom.series | Source code |
| get.posterior.mean | Man page Source code |
| get_model | Man page Source code |
| gp.log.marg.like | Man page Source code |
| gp.predict | Man page Source code |
| gp.predictions.df | Man page Source code |
| guo.cell.meta | Man page |
| guo.expr | Man page |
| guo.gene.meta | Man page |
| held.out.melt | Man page |
| held.out.posterior | Man page Source code |
| held.out.posterior.by.variation | Man page |
| held.out.posterior.filter | Man page |
| held.out.posterior.join | Man page |
| held.out.select.genes | Man page |
| induced.gene.prec | Source code |
| inducing.covariance | Man page Source code |
| init.chain.sample.tau | Source code |
| init.orderings.vs.pseudotimes.plot | Man page Source code |
| is.de.lorean | Man page Source code |
| join.tau.samples | Source code |
| knit.report | Man page Source code |
| kouno.cell.meta | Man page |
| kouno.expr | Man page |
| kouno.gene.meta | Man page |
| make.chain.init.fn | Source code |
| make.fit.valid | Man page Source code |
| make.init.fn | Man page Source code |
| make.predictions | Man page Source code |
| marg.like.plot | Man page Source code |
| match.range | Source code |
| melt.expr | Man page Source code |
| model.parameter.dimensions | Source code |
| mutate.profile.data | Man page Source code |
| optimise.best.sample | Man page Source code |
| optimise.sample | Source code |
| ordering.block.move | Man page Source code |
| ordering.improve | Man page Source code |
| ordering.invert | Man page Source code |
| ordering.is.valid | Man page Source code |
| ordering.maximise | Man page Source code |
| ordering.metropolis.hastings | Man page Source code |
| ordering.move | Man page Source code |
| ordering.random.block.move | Man page Source code |
| ordering.random.move | Man page Source code |
| ordering.test.score | Man page Source code |
| orderings.plot | Man page Source code |
| partition.de.lorean | Man page Source code |
| permute.df | Man page Source code |
| permuted.roughness | Man page |
| plot.add.expr | Man page Source code |
| plot.add.mean.and.variance | Man page Source code |
| plot.de.lorean | Man page Source code |
| plot.held.out.posterior | Man page |
| prepare.for.stan | Man page Source code |
| print.de.lorean | Man page Source code |
| process.posterior | Man page Source code |
| profiles.plot | Man page Source code |
| pseudotime.plot | Man page Source code |
| pseudotimes.from.orderings | Man page Source code |
| pseudotimes.pair.plot | Man page Source code |
| report.file | Man page Source code |
| rev.order.if.better | Source code |
| roughness.of.permutations | Man page |
| roughness.of.sample | Man page |
| roughness.test | Man page |
| roughnesses.plot | Man page |
| sample.genes.and.cells | Source code |
| sample.iters | Source code |
| sample.melter | Source code |
| sample.parameters | Source code |
| sample.per.capture | Source code |
| sampled.gene.param | Source code |
| seriation.find.orderings | Man page Source code |
| summary.de.lorean | Source code |
| tau.for.sample | Source code |
| tau.offsets.plot | Man page Source code |
| test.fit | Man page Source code |
| test.mh | Man page Source code |
| test.robustness.de.lorean | Man page Source code |
| update.levels | Source code |
| windram.cell.meta | Man page |
| windram.expr | Man page |
| windram.gene.meta | Man page |
