API for willwerscheid/flashier
Empirical Bayes Matrix Factorization
| Global functions | |
|---|---|
| accelerate | Source code |
| add.exclusions | Source code |
| add.factor.to.EF | Source code |
| add.factor.to.EF2 | Source code |
| add.factor.to.KL | Source code |
| add.factor.to.ebnm.fn | Source code |
| add.factor.to.g | Source code |
| add.fixed.to.ebnm.args | Source code |
| add.is.valid | Source code |
| add.is.zero | Source code |
| add.new.factor.to.flash | Source code |
| add.subset.data | Source code |
| all_fixed | Source code |
| all_post.samplers | Source code |
| announce.add.factor | Source code |
| announce.backfit | Source code |
| announce.factor.init | Source code |
| announce.factor.opt | Source code |
| announce.flash.init | Source code |
| announce.no.backfit | Source code |
| announce.no.nullchk | Source code |
| announce.nullchk | Source code |
| announce.wrapup | Source code |
| any_missing | Source code |
| as.fullrank | Source code |
| as.fullrank.default | Source code |
| as.fullrank.lowrank | Source code |
| as.fullrank.lrps | Source code |
| as.lowrank | Source code |
| as.lowrank.tau | Source code |
| as.r1.tau | Source code |
| build.sampler | Source code |
| bypass.init | Source code |
| calc.R2 | Source code |
| calc.Y2 | Source code |
| calc.all.ebnm.args | Source code |
| calc.all.s2 | Source code |
| calc.all.x | Source code |
| calc.delta.R2 | Source code |
| calc.ebnm.args | Source code |
| calc.lfsr | Source code |
| calc.max.abs.chg | Source code |
| calc.max.abs.chg.EF | Source code |
| calc.max.chg | Source code |
| calc.max.chg.EF | Source code |
| calc.normalized.loadings | Source code |
| calc.obj | Source code |
| calc.obj.diff | Source code |
| calc.prop.nonmissing | Source code |
| calc.pve | Source code |
| calc.residuals | Source code |
| calc.s2 | Source code |
| calc.tau.R2 | Source code |
| calc.update.info | Source code |
| calc.x | Source code |
| check.parallel.ok | Source code |
| clear.bypass.init.flag | Source code |
| clear.flags | Source code |
| clear.greedy.fail.flag | Source code |
| clear.max.backfit.iter.reached.flag | Source code |
| clear.nullchk.fail.flag | Source code |
| clear.timeout.reached.flag | Source code |
| decelerate | Source code |
| dims.must.match | Source code |
| ebnm.nowarn | Source code |
| elemwise.prod.fullrank.lowrank | Source code |
| elemwise.prod.fullrank.r1 | Source code |
| elemwise.prod.lowrank.r1 | Source code |
| estimate.kronecker.tau | Source code |
| estimate.noisy.kron.tau | Source code |
| estimate.noisy.tau | Source code |
| estimate.simple.tau | Source code |
| extend.ebnm.lists | Source code |
| extract.factor | Source code |
| extrapolate | Source code |
| extrapolate.f | Source code |
| fitted.flash | Man page Source code |
| fitted.flash_fit | Man page Source code |
| flash | Man page Source code |
| flash_add_intercept | Man page Source code |
| flash_backfit | Man page Source code |
| flash_clear_timeout | Man page Source code |
| flash_conv_crit_elbo_diff | Man page Source code |
| flash_conv_crit_max_chg | Man page Source code |
| flash_conv_crit_max_chg_F | Man page Source code |
| flash_conv_crit_max_chg_L | Man page Source code |
| flash_ebnm | Man page Source code |
| flash_factors_fix | Man page Source code |
| flash_factors_init | Man page Source code |
| flash_factors_remove | Man page Source code |
| flash_factors_reorder | Man page Source code |
| flash_factors_set_to_zero | Man page Source code |
| flash_factors_unfix | Man page Source code |
| flash_fit | Man page Source code |
| flash_fit_get_KL | Man page Source code |
| flash_fit_get_elbo | Man page Source code |
| flash_fit_get_est_tau | Man page Source code |
| flash_fit_get_fixed_tau | Man page Source code |
| flash_fit_get_g | Man page Source code |
| flash_fit_get_p2m | Man page Source code |
| flash_fit_get_pm | Man page Source code |
| flash_fit_get_tau | Man page Source code |
| flash_greedy | Man page Source code |
| flash_greedy_init_default | Man page Source code |
| flash_greedy_init_irlba | Man page Source code |
| flash_greedy_init_softImpute | Man page Source code |
| flash_init | Man page Source code |
| flash_nullcheck | Man page Source code |
| flash_plot_bar | Man page Source code |
| flash_plot_dataframe | Source code |
| flash_plot_heatmap | Man page Source code |
| flash_plot_histogram | Man page Source code |
| flash_plot_scatter | Man page Source code |
| flash_plot_scree | Man page Source code |
| flash_plot_structure | Man page Source code |
| flash_set_conv_crit | Man page Source code |
| flash_set_timeout | Man page Source code |
| flash_set_verbose | Man page Source code |
| flash_update_data | Man page Source code |
| flash_verbose_elbo | Man page Source code |
| flash_verbose_elbo_diff | Man page Source code |
| flash_verbose_max_chg | Man page Source code |
| flash_verbose_max_chg_F | Man page Source code |
| flash_verbose_max_chg_L | Man page Source code |
| full.or.lowrank.subset | Source code |
| fullrank.ops.error | Source code |
| fullrank.subset | Source code |
| get.EF | Source code |
| get.EF.k | Source code |
| get.EF.subset | Source code |
| get.EF2 | Source code |
| get.EF2.k | Source code |
| get.EF2.subset | Source code |
| get.KL | Source code |
| get.KL.k | Source code |
| get.R | Source code |
| get.R.subset | Source code |
| get.R2 | Source code |
| get.R2.n | Source code |
| get.Y | Source code |
| get.Y.subset | Source code |
| get.Y2 | Source code |
| get.Z.subset | Source code |
| get.conv.crit | Source code |
| get.conv.crit.fn | Source code |
| get.conv.stat | Source code |
| get.conv.tol | Source code |
| get.curr.obj | Source code |
| get.data.dimnames | Source code |
| get.data.dimnames.default | Source code |
| get.data.dimnames.lowrank | Source code |
| get.data.dimnames.lrps | Source code |
| get.data.dims | Source code |
| get.data.dims.default | Source code |
| get.data.dims.lowrank | Source code |
| get.data.dims.lrps | Source code |
| get.delta.R2 | Source code |
| get.dim | Source code |
| get.dim.signs | Source code |
| get.dimnames | Source code |
| get.dims | Source code |
| get.ebnm.fn | Source code |
| get.ebnm.fn.k | Source code |
| get.est.S2 | Source code |
| get.est.tau | Source code |
| get.est.tau.dim | Source code |
| get.exclusion.count | Source code |
| get.exclusions | Source code |
| get.fit | Source code |
| get.fix.dim | Source code |
| get.fix.idx | Source code |
| get.fix.vals | Source code |
| get.g | Source code |
| get.g.by.mode | Source code |
| get.g.k | Source code |
| get.given.S2 | Source code |
| get.given.tau | Source code |
| get.given.tau.dim | Source code |
| get.idx.subset | Source code |
| get.k | Source code |
| get.kron.nonmissing | Source code |
| get.log.2pi.s2 | Source code |
| get.n.factors | Source code |
| get.n.fixed.to.add | Source code |
| get.n.nonmissing | Source code |
| get.new.EF | Source code |
| get.new.EF2 | Source code |
| get.new.Rsquared | Source code |
| get.next.k | Source code |
| get.next.kset | Source code |
| get.next.unfixed.idx | Source code |
| get.nonmissing | Source code |
| get.nonmissing.thresh | Source code |
| get.obj | Source code |
| get.sparsity | Source code |
| get.subset.data | Source code |
| get.sum.tau.R2 | Source code |
| get.tau | Source code |
| get.tau.for.ebnm.calc | Source code |
| get.timeout | Source code |
| get.timeout.set.time | Source code |
| get.unfixed.idx | Source code |
| get.verbose.colnames | Source code |
| get.verbose.colwidths | Source code |
| get.verbose.fns | Source code |
| get.verbose.info | Source code |
| get.verbose.lvl | Source code |
| greedy.failed | Source code |
| gtex | Man page |
| gtex_colors | Man page |
| handle.data | Source code |
| handle.ebnm.fn | Source code |
| handle.tol.param | Source code |
| handle.udvs | Source code |
| handle.verbose.param | Source code |
| infer.S.dim | Source code |
| init.beta | Source code |
| init.factor | Source code |
| init.kron.nonmissing | Source code |
| init.kronecker.tau | Source code |
| init.log.2pi.s2 | Source code |
| init.n.nonmissing | Source code |
| init.noisy.kron.tau | Source code |
| init.noisy.tau | Source code |
| init.simple.tau | Source code |
| init.tau | Source code |
| init.tau.at.one | Source code |
| init.zero.tau | Source code |
| insert.factor | Source code |
| is.S2.stored | Source code |
| is.new | Source code |
| is.next.fixed | Source code |
| is.obj.valid | Source code |
| is.tau.constant | Source code |
| is.tau.lowrank | Source code |
| is.tau.simple | Source code |
| is.timed.out | Source code |
| is.valid | Source code |
| is.var.type.kronecker | Source code |
| is.var.type.noisy | Source code |
| is.var.type.noisy.kron | Source code |
| is.var.type.zero | Source code |
| is.zero | Source code |
| l2.normalize | Source code |
| l2.normalize.and.stack | Source code |
| ldf | Man page Source code |
| ldf.flash | Man page Source code |
| ldf.flash_fit | Man page Source code |
| lfsr.one.n | Source code |
| list.with.no.NAs | Source code |
| look.up.verbose.colnames | Source code |
| look.up.verbose.colwidths | Source code |
| look.up.verbose.fns | Source code |
| lowrank.delta.mat | Source code |
| lowrank.drop.k | Source code |
| lowrank.expand | Source code |
| lowrank.sc.mult | Source code |
| lowrank.square | Source code |
| lowrank.subset | Source code |
| lowranks.combine | Source code |
| lowranks.prod | Source code |
| must.be.compatible.data.types | Source code |
| must.be.integer | Source code |
| must.be.list.of.named.lists | Source code |
| must.be.numeric | Source code |
| must.be.supported.S.type | Source code |
| must.be.valid.kset | Source code |
| must.be.valid.var.type | Source code |
| must.not.have.zero.slices | Source code |
| nmode.prod.lowrank | Source code |
| nmode.prod.lowrank.default | Source code |
| nmode.prod.lowrank.lowrank | Source code |
| nmode.prod.lowrank.lrps | Source code |
| nmode.prod.r1 | Source code |
| nmode.prod.r1.default | Source code |
| nmode.prod.vec | Source code |
| nmode.prod.vec.default | Source code |
| nmode.prod.vec.lowrank | Source code |
| nmode.prod.vec.lrps | Source code |
| normal.means.loglik | Source code |
| nullcheck.factor | Source code |
| nullchk.failed | Source code |
| one.post.sampler | Source code |
| only.update.subset | Source code |
| optimize.noisy | Source code |
| parallel.ebnm.fn | Source code |
| plot.flash | Man page Source code |
| premult.nmode.prod.r1 | Source code |
| premult.nmode.prod.r1.default | Source code |
| premult.nmode.prod.r1.lowrank | Source code |
| premult.nmode.prod.r1.lrps | Source code |
| print.flash | Source code |
| print_tab.delim.table.header | Source code |
| print_table.entry | Source code |
| print_table.header | Source code |
| propagate.names | Source code |
| r1.drop.dim | Source code |
| r1.expand | Source code |
| r1.ones | Source code |
| r1.ops.error | Source code |
| r1.random | Source code |
| r1.square | Source code |
| r1.subset | Source code |
| r1.sum | Source code |
| r1.to.lowrank | Source code |
| r1.zeros | Source code |
| remove.auxiliary.elements | Source code |
| remove.data.elements | Source code |
| report.add.factor.result | Source code |
| report.backfit.complete | Source code |
| report.backfit.obj.decrease | Source code |
| report.backfit.progress | Source code |
| report.completion | Source code |
| report.factor.removal | Source code |
| report.greedy.obj.decrease | Source code |
| report.maxiter.reached | Source code |
| report.nullchk.failure | Source code |
| report.nullchk.success | Source code |
| report.timeout.no.backfit | Source code |
| report.timeout.no.greedy | Source code |
| report.timeout.reached | Source code |
| report.tol.setting | Source code |
| report.zero.factor | Source code |
| residuals.flash | Man page Source code |
| residuals.flash_fit | Man page Source code |
| scale.EF | Source code |
| set.EF | Source code |
| set.EF2 | Source code |
| set.EF2k | Source code |
| set.EFk | Source code |
| set.KL | Source code |
| set.KLk | Source code |
| set.R | Source code |
| set.R2 | Source code |
| set.Y | Source code |
| set.Y2 | Source code |
| set.bypass.init.flag | Source code |
| set.conv.crit | Source code |
| set.delta.R2 | Source code |
| set.ebnm.fn | Source code |
| set.est.S2 | Source code |
| set.est.tau | Source code |
| set.exclusions | Source code |
| set.extrapolate.param | Source code |
| set.fit | Source code |
| set.fix.dim | Source code |
| set.fix.idx | Source code |
| set.fixed.to.est.g | Source code |
| set.flash.data | Source code |
| set.g | Source code |
| set.gk | Source code |
| set.greedy.fail.flag | Source code |
| set.gwarmstart | Source code |
| set.is.valid | Source code |
| set.is.zero | Source code |
| set.max.backfit.iter.reached.flag | Source code |
| set.n.nonmissing | Source code |
| set.nonmissing | Source code |
| set.nullchk.fail.flag | Source code |
| set.obj | Source code |
| set.sum.tau.R2 | Source code |
| set.tau | Source code |
| set.timeout | Source code |
| set.timeout.reached.flag | Source code |
| set.to.valid | Source code |
| set.to.zero | Source code |
| set.verbose.options | Source code |
| set.warmstart | Source code |
| slice.data | Source code |
| solve.ebnm | Source code |
| solve.ebnm.parallel | Source code |
| sq.nmode.prod.r1 | Source code |
| sq.nmode.prod.r1.default | Source code |
| sq.nmode.prod.r1.lowrank | Source code |
| sq.nmode.prod.r1.lrps | Source code |
| store.R2.as.matrix | Source code |
| store.R2.as.scalar | Source code |
| sumsq | Source code |
| sumsq.default | Source code |
| sumsq.lowrank | Source code |
| tau.from.given.and.est | Source code |
| test.ebnm.fn | Source code |
| to.flashr | Source code |
| update.R | Source code |
| update.R2.tau.and.obj | Source code |
| update.factor | Source code |
| update.factor.one.n | Source code |
| update.factors.in.kset | Source code |
| update.factors.parallel | Source code |
| update.init.EF | Source code |
| update.init.EF.one.n | Source code |
| update.kronecker.tau | Source code |
| update.noisy.kron.tau | Source code |
| update.noisy.tau | Source code |
| update.one.factor | Source code |
| update.simple.tau | Source code |
| update.tau | Source code |
| update.zero.tau | Source code |
| use.fixed.to.est.g | Source code |
| use.subsetted.flash.data | Source code |
| uses.R | Source code |
| warmstart.backfits | Source code |
| warmstart.greedy | Source code |
| warmstart.sanity.check | Source code |
| which.k.fixed | Source code |
| which.max.chg | Source code |
| which.max.chg.EF | Source code |
| wrapup.flash | Source code |
| zero.factor | Source code |
