Title: Xpose 4 Specific Functions Package
Diff between xpose4specific versions 4.3.2 dated 2010-11-30 and 4.3.5 dated 2012-04-19
More information about xpose4specific at CRAN
Description: Xpose is collection of packages to be used as a model
building aid for non-linear mixed effects (population) analysis
using NONMEM. It facilitates data set checkout, exploration and
visualization, model diagnostics, candidate covariate
identification and model comparison. Xpose4specific is a
package containing specific plotting functions, which require
relatively little user input, but are less customizable than
the plot commands found in xpose4generic.
Author: E. Niclas Jonsson
Maintainer: Andrew Hooker
xpose4specific-4.3.2/xpose4specific/R/add.model.comp.cwres.R |only
xpose4specific-4.3.2/xpose4specific/R/basic.gof.cwres.R |only
xpose4specific-4.3.2/xpose4specific/R/basic.model.comp.cwres.R |only
xpose4specific-4.3.2/xpose4specific/R/runsum.old.R |only
xpose4specific-4.3.2/xpose4specific/R/runsum.print.R |only
xpose4specific-4.3.2/xpose4specific/R/zzz.R |only
xpose4specific-4.3.2/xpose4specific/man/dv.preds.vs.idv.Rd |only
xpose4specific-4.3.2/xpose4specific/man/ind.plots.cwres.hist.Rd |only
xpose4specific-4.3.2/xpose4specific/man/ind.plots.cwres.qq.Rd |only
xpose4specific-4.3.2/xpose4specific/man/runsum.print.Rd |only
xpose4specific-4.3.5/xpose4specific/DESCRIPTION | 14
xpose4specific-4.3.5/xpose4specific/MD5 |only
xpose4specific-4.3.5/xpose4specific/NAMESPACE | 2
xpose4specific-4.3.5/xpose4specific/R/absval.dcwres.vs.cov.model.comp.R | 8
xpose4specific-4.3.5/xpose4specific/R/absval.dipred.vs.cov.model.comp.R | 7
xpose4specific-4.3.5/xpose4specific/R/absval.diwres.vs.cov.model.comp.R | 9
xpose4specific-4.3.5/xpose4specific/R/absval.dpred.vs.cov.model.comp.R | 7
xpose4specific-4.3.5/xpose4specific/R/absval.dwres.vs.cov.model.comp.R | 7
xpose4specific-4.3.5/xpose4specific/R/absval.iwres.vs.cov.bw.R |only
xpose4specific-4.3.5/xpose4specific/R/absval.iwres.vs.ipred.R | 2
xpose4specific-4.3.5/xpose4specific/R/absval.wres.vs.idv.R |only
xpose4specific-4.3.5/xpose4specific/R/absval.wres.vs.pred.by.cov.R | 2
xpose4specific-4.3.5/xpose4specific/R/add.model.comp.R | 110 +
xpose4specific-4.3.5/xpose4specific/R/autocorr.cwres.R | 2
xpose4specific-4.3.5/xpose4specific/R/autocorr.iwres.R |only
xpose4specific-4.3.5/xpose4specific/R/autocorr.wres.R | 2
xpose4specific-4.3.5/xpose4specific/R/basic.gof.R | 1
xpose4specific-4.3.5/xpose4specific/R/basic.model.comp.R | 17
xpose4specific-4.3.5/xpose4specific/R/cat.dv.vs.idv.sb.R | 2
xpose4specific-4.3.5/xpose4specific/R/check.gamobj.R | 14
xpose4specific-4.3.5/xpose4specific/R/gof.R |only
xpose4specific-4.3.5/xpose4specific/R/gofSetup.R |only
xpose4specific-4.3.5/xpose4specific/R/ind.plots.R | 6
xpose4specific-4.3.5/xpose4specific/R/ind.plots.cwres.hist.R | 134 -
xpose4specific-4.3.5/xpose4specific/R/ind.plots.cwres.qq.R | 119 -
xpose4specific-4.3.5/xpose4specific/R/ind.plots.wres.hist.R | 61
xpose4specific-4.3.5/xpose4specific/R/ind.plots.wres.qq.R | 74
xpose4specific-4.3.5/xpose4specific/R/kaplan.plot.R | 786 ++++++----
xpose4specific-4.3.5/xpose4specific/R/npc.coverage.R | 3
xpose4specific-4.3.5/xpose4specific/R/parm.summary.R | 2
xpose4specific-4.3.5/xpose4specific/R/runsum.R | 65
xpose4specific-4.3.5/xpose4specific/R/tabulate.parameters.R | 20
xpose4specific-4.3.5/xpose4specific/R/xp.akaike.plot.R | 17
xpose4specific-4.3.5/xpose4specific/R/xp.gam.R | 4
xpose4specific-4.3.5/xpose4specific/R/xp.get.disp.R | 2
xpose4specific-4.3.5/xpose4specific/R/xp.ind.inf.fit.R | 44
xpose4specific-4.3.5/xpose4specific/R/xp.ind.inf.terms.R | 12
xpose4specific-4.3.5/xpose4specific/R/xp.ind.stud.res.R | 18
xpose4specific-4.3.5/xpose4specific/R/xp.plot.R | 20
xpose4specific-4.3.5/xpose4specific/R/xp.scope3.R | 6
xpose4specific-4.3.5/xpose4specific/R/xp.summary.R | 14
xpose4specific-4.3.5/xpose4specific/R/xpPage.R |only
xpose4specific-4.3.5/xpose4specific/R/xpose.VPC.R | 26
xpose4specific-4.3.5/xpose4specific/R/xpose.VPC.categorical.R | 3
xpose4specific-4.3.5/xpose4specific/R/xpose.gam.R | 2
xpose4specific-4.3.5/xpose4specific/R/xpose.license.citation.R | 2
xpose4specific-4.3.5/xpose4specific/inst/changelog.txt | 22
xpose4specific-4.3.5/xpose4specific/inst/readme.txt | 2
xpose4specific-4.3.5/xpose4specific/man/absval.cwres.vs.cov.bw.Rd | 13
xpose4specific-4.3.5/xpose4specific/man/absval.cwres.vs.pred.Rd | 14
xpose4specific-4.3.5/xpose4specific/man/absval.cwres.vs.pred.by.cov.Rd | 13
xpose4specific-4.3.5/xpose4specific/man/absval.iwres.vs.ipred.Rd | 17
xpose4specific-4.3.5/xpose4specific/man/absval.iwres.vs.ipred.by.cov.Rd | 13
xpose4specific-4.3.5/xpose4specific/man/absval.iwres.vs.pred.Rd | 15
xpose4specific-4.3.5/xpose4specific/man/absval.iwres.wres.vs.ipred.pred.Rd | 12
xpose4specific-4.3.5/xpose4specific/man/absval.wres.vs.cov.bw.Rd | 24
xpose4specific-4.3.5/xpose4specific/man/absval.wres.vs.idv.Rd |only
xpose4specific-4.3.5/xpose4specific/man/absval.wres.vs.pred.Rd | 17
xpose4specific-4.3.5/xpose4specific/man/absval.wres.vs.pred.by.cov.Rd | 19
xpose4specific-4.3.5/xpose4specific/man/add.model.comp.Rd | 18
xpose4specific-4.3.5/xpose4specific/man/addit.gof.Rd | 13
xpose4specific-4.3.5/xpose4specific/man/autocorr.cwres.Rd | 22
xpose4specific-4.3.5/xpose4specific/man/autocorr.wres.Rd | 41
xpose4specific-4.3.5/xpose4specific/man/basic.gof.Rd | 28
xpose4specific-4.3.5/xpose4specific/man/basic.model.comp.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/cat.dv.vs.idv.sb.Rd | 36
xpose4specific-4.3.5/xpose4specific/man/cat.pc.Rd | 35
xpose4specific-4.3.5/xpose4specific/man/cwres.dist.hist.Rd | 9
xpose4specific-4.3.5/xpose4specific/man/cwres.dist.qq.Rd | 10
xpose4specific-4.3.5/xpose4specific/man/cwres.vs.cov.Rd | 11
xpose4specific-4.3.5/xpose4specific/man/cwres.vs.idv.Rd | 17
xpose4specific-4.3.5/xpose4specific/man/cwres.vs.idv.bw.Rd | 9
xpose4specific-4.3.5/xpose4specific/man/cwres.vs.pred.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/cwres.vs.pred.bw.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/cwres.wres.vs.idv.Rd | 11
xpose4specific-4.3.5/xpose4specific/man/dOFV.vs.cov.Rd | 34
xpose4specific-4.3.5/xpose4specific/man/dOFV.vs.id.Rd | 34
xpose4specific-4.3.5/xpose4specific/man/dOFV1.vs.dOFV2.Rd | 35
xpose4specific-4.3.5/xpose4specific/man/data.checkout.Rd | 3
xpose4specific-4.3.5/xpose4specific/man/dist.hist.Rd | 15
xpose4specific-4.3.5/xpose4specific/man/dist.qq.Rd | 15
xpose4specific-4.3.5/xpose4specific/man/dv.preds.vs.idv.rd |only
xpose4specific-4.3.5/xpose4specific/man/dv.vs.idv.Rd | 17
xpose4specific-4.3.5/xpose4specific/man/dv.vs.ipred.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/dv.vs.ipred.by.cov.Rd | 13
xpose4specific-4.3.5/xpose4specific/man/dv.vs.ipred.by.idv.Rd | 14
xpose4specific-4.3.5/xpose4specific/man/dv.vs.pred.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/dv.vs.pred.by.cov.Rd | 13
xpose4specific-4.3.5/xpose4specific/man/dv.vs.pred.by.idv.Rd | 14
xpose4specific-4.3.5/xpose4specific/man/dv.vs.pred.ipred.Rd | 12
xpose4specific-4.3.5/xpose4specific/man/gof.Rd |only
xpose4specific-4.3.5/xpose4specific/man/ind.plots.Rd | 10
xpose4specific-4.3.5/xpose4specific/man/ind.plots.wres.hist.Rd | 70
xpose4specific-4.3.5/xpose4specific/man/ind.plots.wres.qq.Rd | 60
xpose4specific-4.3.5/xpose4specific/man/ipred.vs.idv.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/iwres.dist.hist.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/iwres.dist.qq.Rd | 10
xpose4specific-4.3.5/xpose4specific/man/iwres.vs.idv.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/kaplan.plot.Rd | 92 -
xpose4specific-4.3.5/xpose4specific/man/npc.coverage.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/parm.vs.cov.Rd | 9
xpose4specific-4.3.5/xpose4specific/man/parm.vs.parm.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/pred.vs.idv.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/ranpar.vs.cov.Rd | 9
xpose4specific-4.3.5/xpose4specific/man/runsum.Rd |only
xpose4specific-4.3.5/xpose4specific/man/splom.Rd | 15
xpose4specific-4.3.5/xpose4specific/man/summary.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/tabulate.parameters.Rd | 18
xpose4specific-4.3.5/xpose4specific/man/wres.dist.hist.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/wres.dist.qq.Rd | 10
xpose4specific-4.3.5/xpose4specific/man/wres.vs.cov.Rd | 11
xpose4specific-4.3.5/xpose4specific/man/wres.vs.idv.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/wres.vs.idv.bw.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/wres.vs.pred.Rd | 16
xpose4specific-4.3.5/xpose4specific/man/wres.vs.pred.bw.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/xp.gam.Rd | 11
xpose4specific-4.3.5/xpose4specific/man/xpose.VPC.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/xpose.VPC.both.Rd | 32
xpose4specific-4.3.5/xpose4specific/man/xpose.VPC.categorical.Rd | 32
xpose4specific-4.3.5/xpose4specific/man/xpose.gam.Rd | 12
xpose4specific-4.3.5/xpose4specific/man/xpose.license.citation.Rd | 8
xpose4specific-4.3.5/xpose4specific/man/xpose4specific-package.Rd | 6
132 files changed, 1719 insertions(+), 1218 deletions(-)
Permanent link
Title: Xpose 4 Generic Functions Package
Diff between xpose4generic versions 4.3.3 dated 2011-09-19 and 4.3.5 dated 2012-04-19
Description: Xpose is collection of packages to be used as a model
building aid for non-linear mixed effects (population) analysis
using NONMEM. It facilitates data set checkout, exploration and
visualization, model diagnostics, candidate covariate
identification and model comparison. xpose4generic is a package
containing generic functions for plotting, as well as class
definitions. Highly customizeable, but requires more user
input that xpose4specific.
Author: E. Niclas Jonsson
Maintainer: Andrew Hooker
xpose4generic-4.3.3/xpose4generic/R/xpose.bin.R |only
xpose4generic-4.3.5/xpose4generic/DESCRIPTION | 13 -
xpose4generic-4.3.5/xpose4generic/MD5 | 83 ++++------
xpose4generic-4.3.5/xpose4generic/NAMESPACE | 2
xpose4generic-4.3.5/xpose4generic/R/PI.helper.R | 16 +
xpose4generic-4.3.5/xpose4generic/R/add.grid.text.R | 2
xpose4generic-4.3.5/xpose4generic/R/addid.R | 8
xpose4generic-4.3.5/xpose4generic/R/compute.cwres.R | 39 ++--
xpose4generic-4.3.5/xpose4generic/R/create.mirror.R | 2
xpose4generic-4.3.5/xpose4generic/R/create.xpose.plot.classes.R | 4
xpose4generic-4.3.5/xpose4generic/R/xpose.panel.default.R | 2
xpose4generic-4.3.5/xpose4generic/R/xpose.panel.qq.R | 4
xpose4generic-4.3.5/xpose4generic/R/xpose.plot.bw.R | 2
xpose4generic-4.3.5/xpose4generic/R/xpose.plot.default.R | 2
xpose4generic-4.3.5/xpose4generic/R/xpose.plot.histogram.R | 2
xpose4generic-4.3.5/xpose4generic/R/xpose.plot.qq.R | 2
xpose4generic-4.3.5/xpose4generic/R/xpose.plot.splom.R | 2
xpose4generic-4.3.5/xpose4generic/R/zzz.R | 8
xpose4generic-4.3.5/xpose4generic/inst/changelog.txt | 24 ++
xpose4generic-4.3.5/xpose4generic/inst/readme.txt | 2
xpose4generic-4.3.5/xpose4generic/man/add.grid.table.Rd | 2
xpose4generic-4.3.5/xpose4generic/man/compute.cwres.Rd | 18 --
xpose4generic-4.3.5/xpose4generic/man/create.xpose.plot.classes.Rd | 36 ++--
xpose4generic-4.3.5/xpose4generic/man/functions.Rd | 10 -
xpose4generic-4.3.5/xpose4generic/man/internal.functions.Rd | 9 -
xpose4generic-4.3.5/xpose4generic/man/print.xpose.multiple.plot.Rd | 33 ++-
xpose4generic-4.3.5/xpose4generic/man/tables.Rd | 8
xpose4generic-4.3.5/xpose4generic/man/xpose.create.title.text.Rd | 35 ++--
xpose4generic-4.3.5/xpose4generic/man/xpose.dev.new.Rd | 10 -
xpose4generic-4.3.5/xpose4generic/man/xpose.multiple.plot.Rd | 29 ++-
xpose4generic-4.3.5/xpose4generic/man/xpose.panel.bw.Rd | 7
xpose4generic-4.3.5/xpose4generic/man/xpose.panel.default.Rd | 7
xpose4generic-4.3.5/xpose4generic/man/xpose.panel.histogram.Rd | 7
xpose4generic-4.3.5/xpose4generic/man/xpose.panel.qq.Rd | 13 -
xpose4generic-4.3.5/xpose4generic/man/xpose.panel.splom.Rd | 7
xpose4generic-4.3.5/xpose4generic/man/xpose.plot.bw.Rd | 6
xpose4generic-4.3.5/xpose4generic/man/xpose.plot.default.Rd | 2
xpose4generic-4.3.5/xpose4generic/man/xpose.plot.histogram.Rd | 2
xpose4generic-4.3.5/xpose4generic/man/xpose.plot.qq.Rd | 6
xpose4generic-4.3.5/xpose4generic/man/xpose.plot.splom.Rd | 2
xpose4generic-4.3.5/xpose4generic/man/xpose.string.print.Rd | 36 ++--
xpose4generic-4.3.5/xpose4generic/man/xpose.yscale.components.log10.Rd | 4
xpose4generic-4.3.5/xpose4generic/man/xpose4generic-package.Rd | 5
43 files changed, 245 insertions(+), 268 deletions(-)
Title: Xpose 4 Data Functions Package
Diff between xpose4data versions 4.3.2 dated 2010-11-30 and 4.3.5 dated 2012-04-19
Description: Xpose is collection of packages to be used as a model
building aid for non-linear mixed effects (population) analysis
using NONMEM. It facilitates data set checkout, exploration and
visualization, model diagnostics, candidate covariate
identification and model comparison. xpose4data is a package
containing functions for reading in data from NONMEM, support
functions, as well as class definitions.
Author: E. Niclas Jonsson
Maintainer: Andrew Hooker
xpose4data-4.3.2/xpose4data/R/label.R |only
xpose4data-4.3.2/xpose4data/man/label.Rd |only
xpose4data-4.3.5/xpose4data/DESCRIPTION | 12 -
xpose4data-4.3.5/xpose4data/MD5 |only
xpose4data-4.3.5/xpose4data/NAMESPACE | 2
xpose4data-4.3.5/xpose4data/R/SData.R | 6
xpose4data-4.3.5/xpose4data/R/add.absval.R | 2
xpose4data-4.3.5/xpose4data/R/add.dichot.R | 2
xpose4data-4.3.5/xpose4data/R/add.exp.R | 2
xpose4data-4.3.5/xpose4data/R/add.log.R | 2
xpose4data-4.3.5/xpose4data/R/add.tad.R | 2
xpose4data-4.3.5/xpose4data/R/calc.npar.R | 39 +++-
xpose4data-4.3.5/xpose4data/R/change.ab.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.bw.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.cat.cont.R | 2
xpose4data-4.3.5/xpose4data/R/change.cat.levels.R | 2
xpose4data-4.3.5/xpose4data/R/change.cond.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.dil.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.dv.cat.levels.R | 2
xpose4data-4.3.5/xpose4data/R/change.label.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.lm.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.misc.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.miss.R | 2
xpose4data-4.3.5/xpose4data/R/change.parm.R | 2
xpose4data-4.3.5/xpose4data/R/change.pi.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.smooth.graph.par.R | 2
xpose4data-4.3.5/xpose4data/R/change.subset.R | 4
xpose4data-4.3.5/xpose4data/R/change.var.name.R | 2
xpose4data-4.3.5/xpose4data/R/change.xlabel.R | 6
xpose4data-4.3.5/xpose4data/R/change.xvardef.R | 6
xpose4data-4.3.5/xpose4data/R/create.parameter.list.R | 77 +++++---
xpose4data-4.3.5/xpose4data/R/createXposeClasses.R | 4
xpose4data-4.3.5/xpose4data/R/import.graph.par.R | 6
xpose4data-4.3.5/xpose4data/R/import.variable.definitions.R | 2
xpose4data-4.3.5/xpose4data/R/is.readable.file.R | 15 -
xpose4data-4.3.5/xpose4data/R/read.lst.R | 12 -
xpose4data-4.3.5/xpose4data/R/read.lst6.R | 46 ++--
xpose4data-4.3.5/xpose4data/R/read.lst7.R | 9
xpose4data-4.3.5/xpose4data/R/read.nm.tables.R | 6
xpose4data-4.3.5/xpose4data/R/read.phi.R | 96 ++++++----
xpose4data-4.3.5/xpose4data/R/reset.graph.par.R | 6
xpose4data-4.3.5/xpose4data/R/set.doc.R | 2
xpose4data-4.3.5/xpose4data/R/simprazExample.R |only
xpose4data-4.3.5/xpose4data/R/xlabel.R |only
xpose4data-4.3.5/xpose4data/R/xpose.bin.R |only
xpose4data-4.3.5/xpose4data/R/xpose.data.R | 60 +++++-
xpose4data-4.3.5/xpose4data/R/xvardef.R | 6
xpose4data-4.3.5/xpose4data/R/zzz.R | 6
xpose4data-4.3.5/xpose4data/data |only
xpose4data-4.3.5/xpose4data/inst/changelog.txt | 22 ++
xpose4data-4.3.5/xpose4data/inst/readme.txt | 2
xpose4data-4.3.5/xpose4data/man/Data.Rd | 22 +-
xpose4data-4.3.5/xpose4data/man/add.functions.Rd | 28 +-
xpose4data-4.3.5/xpose4data/man/change.graphical.parameters.Rd | 38 +--
xpose4data-4.3.5/xpose4data/man/change.misc.parameters.Rd | 46 ++--
xpose4data-4.3.5/xpose4data/man/change.parm.Rd | 25 ++
xpose4data-4.3.5/xpose4data/man/change.var.name.Rd | 2
xpose4data-4.3.5/xpose4data/man/change.xlabel.Rd | 6
xpose4data-4.3.5/xpose4data/man/change.xvardef.Rd | 4
xpose4data-4.3.5/xpose4data/man/functions.Rd | 3
xpose4data-4.3.5/xpose4data/man/import.graph.par.Rd | 7
xpose4data-4.3.5/xpose4data/man/import.variable.definitions.Rd | 2
xpose4data-4.3.5/xpose4data/man/make.sb.data.Rd | 37 ++-
xpose4data-4.3.5/xpose4data/man/nsim.Rd | 2
xpose4data-4.3.5/xpose4data/man/read.TTE.sim.data.Rd | 38 ++-
xpose4data-4.3.5/xpose4data/man/read.nm.output.Rd | 9
xpose4data-4.3.5/xpose4data/man/read.npc.vpc.results.Rd | 5
xpose4data-4.3.5/xpose4data/man/read.vpctab.Rd | 4
xpose4data-4.3.5/xpose4data/man/reset.Rd | 24 --
xpose4data-4.3.5/xpose4data/man/simpraz.xpdb.Rd |only
xpose4data-4.3.5/xpose4data/man/simprazExample.Rd |only
xpose4data-4.3.5/xpose4data/man/xlabel.Rd |only
xpose4data-4.3.5/xpose4data/man/xpose.data-class.Rd | 2
xpose4data-4.3.5/xpose4data/man/xpose.data.Rd | 10 -
xpose4data-4.3.5/xpose4data/man/xpose.prefs-class.Rd | 2
xpose4data-4.3.5/xpose4data/man/xpose4data-package.Rd | 9
xpose4data-4.3.5/xpose4data/man/xvardef.Rd | 15 -
77 files changed, 497 insertions(+), 335 deletions(-)
Title: Xpose 4
Diff between xpose4 versions 4.3.2 dated 2010-11-30 and 4.3.5 dated 2012-04-19
Description: Xpose is collection of packages to be used as a model
building aid for non-linear mixed effects (population) analysis
using NONMEM. It facilitates data set checkout, exploration and
visualization, model diagnostics, candidate covariate
identification and model comparison. xpose4 is a package that
links the other 4 packages together.
Author: E. Niclas Jonsson
Maintainer: Andrew Hooker
xpose4-4.3.2/xpose4/R |only
xpose4-4.3.5/xpose4/DESCRIPTION | 14 +++++++-------
xpose4-4.3.5/xpose4/MD5 |only
xpose4-4.3.5/xpose4/inst/changelog.txt | 22 +++++++++++++++++++++-
xpose4-4.3.5/xpose4/inst/readme.txt | 2 +-
xpose4-4.3.5/xpose4/man/xpose4-package.Rd | 6 +-----
6 files changed, 30 insertions(+), 14 deletions(-)
Title: Xpose 4 Classic Menu System
Diff between xpose4classic versions 4.3.2 dated 2010-11-30 and 4.3.5 dated 2012-04-19
Description: Xpose is collection of packages to be used as a model
building aid for non-linear mixed effects (population) analysis
using NONMEM. It facilitates data set checkout, exploration and
visualization, model diagnostics, candidate covariate
identification and model comparison. xpose4classic is a package
containing functions for runing the classic menu system in
Xpose.
Author: E. Niclas Jonsson
Maintainer: Andrew Hooker
xpose4classic-4.3.2/xpose4classic/R/zzz.R |only
xpose4classic-4.3.5/xpose4classic/DESCRIPTION | 14 +-
xpose4classic-4.3.5/xpose4classic/MD5 |only
xpose4classic-4.3.5/xpose4classic/NAMESPACE | 2
xpose4classic-4.3.5/xpose4classic/R/add.modify.db.items.menu.R | 14 +-
xpose4classic-4.3.5/xpose4classic/R/covariate.model.menu.R | 12 +-
xpose4classic-4.3.5/xpose4classic/R/cwres.menu.R | 30 ++---
xpose4classic-4.3.5/xpose4classic/R/data.checkout.menu.R | 12 +-
xpose4classic-4.3.5/xpose4classic/R/documentation.menu.R | 6 -
xpose4classic-4.3.5/xpose4classic/R/gam.menu.R | 8 -
xpose4classic-4.3.5/xpose4classic/R/gam.settings.menu.R | 6 -
xpose4classic-4.3.5/xpose4classic/R/gof.menu.R | 8 -
xpose4classic-4.3.5/xpose4classic/R/manage.db.R | 58 +++++-----
xpose4classic-4.3.5/xpose4classic/R/model.comparison.covariates.menu.R | 8 -
xpose4classic-4.3.5/xpose4classic/R/model.comparison.menu.R | 20 +--
xpose4classic-4.3.5/xpose4classic/R/parameters.menu.R | 16 +-
xpose4classic-4.3.5/xpose4classic/R/residual.diagnostics.menu.R | 26 ++--
xpose4classic-4.3.5/xpose4classic/R/runsum.print.R |only
xpose4classic-4.3.5/xpose4classic/R/structural.diagnostics.menu.R | 18 +--
xpose4classic-4.3.5/xpose4classic/R/xpose4.R | 2
xpose4classic-4.3.5/xpose4classic/inst/changelog.txt | 22 +++
xpose4classic-4.3.5/xpose4classic/inst/readme.txt | 2
xpose4classic-4.3.5/xpose4classic/man/functions.Rd | 7 -
xpose4classic-4.3.5/xpose4classic/man/xpose4classic-package.Rd | 7 -
24 files changed, 156 insertions(+), 142 deletions(-)
Title: Simple Parallel R INTerface
Diff between sprint versions 1.0.0 dated 2012-04-15 and 1.0.1 dated 2012-04-19
Description: SPRINT (Simple Parallel R INTerface) is a parallel
framework for R. It provides a High Performance Computing (HPC)
harness which allow R scripts to run on HPC clusters. SPRINT
contains a library of selected R functions that have been
parallelized. Functions are named after the original R function
with the added prefix 'p', i.e. the parallel version of cor()
in SPRINT is called pcor(). Call to the parallel R functions
are included directly in standard R scripts.
Author: University of Edinburgh SPRINT Team
Maintainer: University of Edinburgh SPRINT Team
DESCRIPTION | 12 ++++++------
MD5 | 26 +++++++++++++++++++++++---
NEWS | 4 ++++
inst |only
src/sprint.c | 1 +
test_suite |only
6 files changed, 34 insertions(+), 9 deletions(-)
Title: Image Reading Module for R
Diff between ReadImages versions 0.1.3.1 dated 2009-07-30 and 0.1.3.2 dated 2012-04-19
Description: This package provides functions for reading JPEG and PNG
files. This package requires libjpeg
Author: Markus Loecher
Maintainer: Markus Loecher
ReadImages-0.1.3.1/ReadImages/data/Rlogo.jpg |only
ReadImages-0.1.3.2/ReadImages/DESCRIPTION | 10 +-
ReadImages-0.1.3.2/ReadImages/MD5 |only
ReadImages-0.1.3.2/ReadImages/NAMESPACE |only
ReadImages-0.1.3.2/ReadImages/data/logo.RData |binary
ReadImages-0.1.3.2/ReadImages/inst |only
ReadImages-0.1.3.2/ReadImages/man/ReadImages-package.Rd | 64 ++++++++--------
ReadImages-0.1.3.2/ReadImages/man/imageType.Rd | 50 ++++++------
ReadImages-0.1.3.2/ReadImages/man/read.jpeg.Rd | 44 +++++------
ReadImages-0.1.3.2/ReadImages/man/rgb2grey.Rd | 44 +++++------
10 files changed, 110 insertions(+), 102 deletions(-)
Title: Rcpp integration for Armadillo templated linear algebra library
Diff between RcppArmadillo versions 0.3.0.1 dated 2012-04-12 and 0.3.0.2 dated 2012-04-19
Description: R and Armadillo integration using Rcpp Armadillo is a
templated C++ linear algebra library (by Conrad Sanderson) that
aims towards a good balance between speed and ease of use.
Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions.
Various matrix decompositions are provided through optional
integration with LAPACK and ATLAS libraries.
A delayed evaluation approach is employed (during compile time) to
combine several operations into one, and to reduce (or
eliminate) the need for temporaries. This is accomplished
through recursive templates and template meta-programming.
This library is useful if C++ has been decided as the language of
choice (due to speed and/or integration capabilities), rather
than another language.
The RcppArmadillo package includes the header files from the templated
Armadillo library (currently version 3.0.2). Thus users do not
need to install Armadillo itself in order to use RcppArmadillo.
This Armadillo integration provides a nice illustration of the
capabilities of the Rcpp package for seamless R and C++
integration.
Armadillo is licensed under the GNU LGPL version 3 or later, while
RcppArmadillo (the Rcpp bindings/bridge to Armadillo) is
licenses under the GNU GPL version 2 or later, as is the rest
of Rcpp.
Author: Romain Francois, Dirk Eddelbuettel and Doug Bates
Maintainer: Romain Francois, Dirk Eddelbuettel and Doug Bates
ChangeLog | 11 +++++++
DESCRIPTION | 10 +++---
MD5 | 12 +++----
inst/NEWS | 10 ++++++
inst/include/RcppArmadilloConfig.h | 6 +++
inst/include/armadillo_bits/arma_version.hpp | 2 -
inst/include/armadillo_bits/diagmat_proxy.hpp | 40 ++++++++++++++++++--------
7 files changed, 67 insertions(+), 24 deletions(-)
Title: Analyze Multinomial Processing Tree Models
Diff between MPTinR versions 0.6.5 dated 2011-11-22 and 0.8.10 dated 2012-04-19
Description: MPTinR provides a user-friendly way for the analysis of
multinomial processing tree (MPT) models (e.g., Riefer, D. M.,
and Batchelder, W. H. [1988]. Multinomial modeling and the
measurement of cognitive processes. Psychological Review, 95,
318-339) for single and multiple datasets. The main functions
perform model fitting and model selection. Model selection can
be done using AIC, BIC, or the Fisher Information Approximation
(FIA) a measure based on the Minimum Description Length (MDL)
framework. The model and restrictions can specified in external
files or within an R script in an intuitive syntax. The
'classical' .EQN file format for model files is also supported.
Besides MPTs, MPTinR can fit a wide variety of other cognitive
models such as SDT models (see fit.model). MPTinR supports
multicore fitting using the snowfall package.
Author: Henrik Singmann and David Kellen
Maintainer: Henrik Singmann
ChangeLog | 88 ++++++++++
DESCRIPTION | 27 ++-
MD5 | 59 +++----
NAMESPACE | 4
NEWS | 88 ++++++++++
R/apply.MPT.restrictions.R | 28 +++
R/check.mpt.R | 4
R/find.MPT.params.R | 18 +-
R/fit.model.R |only
R/fit.mpt.R | 373 +++++++--------------------------------------
R/fit.mpt.old.R |only
R/fit.mptinr.R |only
R/get.mpt.fia.R | 7
R/get.mpt.model.R | 2
R/llk.gradient.hessian.R |only
R/make.eqn.R | 9 -
R/read.MPT.restrictions.R | 29 ++-
R/select.mpt.R | 17 +-
data/d.broeder.rda |binary
data/rb.fig1.data.rda |binary
data/rb.fig2.data.rda |binary
man/MPTinR-package.Rd | 12 -
man/bmpt.fia.Rd | 8
man/check.mpt.Rd | 10 -
man/d.broeder.Rd | 3
man/fit.model.Rd |only
man/fit.mpt.Rd | 194 +++++++++++++++--------
man/fit.mpt.old.Rd |only
man/fit.mptinr.Rd |only
man/get.mpt.fia.Rd | 6
man/make.eqn.Rd | 17 +-
man/make.mpt.cf.Rd | 10 -
man/prepare.mpt.fia.Rd | 7
man/select.mpt.Rd | 17 +-
34 files changed, 565 insertions(+), 472 deletions(-)
Title: Solving Linear Inverse Models
Diff between limSolve versions 1.5.2 dated 2010-04-06 and 1.5.3 dated 2012-04-19
Description: Functions that (1.) Find the minimum/maximum of a linear
or quadratic function: min or max (f(x)), where f(x) =
||Ax-b||^2 or f(x) = sum(ai*xi) subject to equality constraints
Ex=f and/or inequality constraints Gx>=h. (2.) Sample an
underdetermined- or overdetermined system Ex=f subject to
Gx>=h, and if applicable Ax~=b. (3.) Solve a linear system
Ax=B for the unknown x. Includes banded and tridiagonal linear
systems. The package calls Fortran functions from LINPACK
Author: Karline Soetaert
Maintainer: Karline Soetaert
limSolve-1.5.2/limSolve/inst/doc/JSS-373-fig1.pdf |only
limSolve-1.5.2/limSolve/inst/doc/JSS-373-fig2.pdf |only
limSolve-1.5.2/limSolve/inst/doc/RigaSpring.input |only
limSolve-1.5.2/limSolve/inst/doc/jss.bst |only
limSolve-1.5.2/limSolve/inst/doc/jss.cls |only
limSolve-1.5.2/limSolve/inst/doc/limSolve.pdf |only
limSolve-1.5.2/limSolve/inst/doc/limSolve.rnw |only
limSolve-1.5.2/limSolve/inst/doc/vignettes.bib |only
limSolve-1.5.2/limSolve/inst/doc/xsample.pdf |only
limSolve-1.5.2/limSolve/inst/doc/xsample.rnw |only
limSolve-1.5.3/limSolve/DESCRIPTION | 26
limSolve-1.5.3/limSolve/MD5 |only
limSolve-1.5.3/limSolve/R/ldei.R | 3
limSolve-1.5.3/limSolve/R/ldp.R | 2
limSolve-1.5.3/limSolve/R/lsei.R | 4
limSolve-1.5.3/limSolve/R/nnls.R | 10
limSolve-1.5.3/limSolve/data/Blending.rda |binary
limSolve-1.5.3/limSolve/data/Chemtax.rda |binary
limSolve-1.5.3/limSolve/data/E_coli.rda |binary
limSolve-1.5.3/limSolve/data/Minkdiet.rda |binary
limSolve-1.5.3/limSolve/data/RigaWeb.rda |binary
limSolve-1.5.3/limSolve/man/Blending.Rd | 40
limSolve-1.5.3/limSolve/man/Chemtax.Rd | 28
limSolve-1.5.3/limSolve/man/E_coli.Rd | 49 -
limSolve-1.5.3/limSolve/man/Minkdiet.Rd | 62 -
limSolve-1.5.3/limSolve/man/RigaWeb.rd | 25
limSolve-1.5.3/limSolve/man/Solve.Rd | 36
limSolve-1.5.3/limSolve/man/Solve.banded.Rd | 65 -
limSolve-1.5.3/limSolve/man/Solve.block.Rd | 38
limSolve-1.5.3/limSolve/man/Solve.tridiag.Rd | 28
limSolve-1.5.3/limSolve/man/ldei.Rd | 52 -
limSolve-1.5.3/limSolve/man/ldp.Rd | 13
limSolve-1.5.3/limSolve/man/limSolve.rd | 5
limSolve-1.5.3/limSolve/man/linp.Rd | 79 -
limSolve-1.5.3/limSolve/man/lsei.Rd | 78 +
limSolve-1.5.3/limSolve/man/nnls.Rd | 14
limSolve-1.5.3/limSolve/man/resolution.Rd | 14
limSolve-1.5.3/limSolve/man/varranges.Rd | 37
limSolve-1.5.3/limSolve/man/varsample.Rd | 29
limSolve-1.5.3/limSolve/man/xranges.Rd | 50 -
limSolve-1.5.3/limSolve/man/xsample.Rd | 57 -
limSolve-1.5.3/limSolve/src/colrow.f | 2
limSolve-1.5.3/limSolve/src/inverse.f | 126 +-
limSolve-1.5.3/limSolve/src/solve.f | 1023 ----------------------
limSolve-1.5.3/limSolve/vignetttes |only
45 files changed, 625 insertions(+), 1370 deletions(-)
Title: Distributed Lag Non-linear Models
Diff between dlnm versions 1.6.1 dated 2012-04-16 and 1.6.2 dated 2012-04-19
Description: The package dlnm contains functions to specify and run
distributed lag linear and non-linear models.
Author: Antonio Gasparrini and Ben Armstrong
Maintainer: Antonio Gasparrini
DESCRIPTION | 8 ++++----
MD5 | 20 ++++++++++----------
R/onebasis.R | 14 +++++---------
R/summary.crossbasis.R | 2 +-
R/summary.onebasis.R | 4 ++--
inst/ChangeLog | 17 +++++++++++++++++
inst/doc/dlnmOverview.Rnw | 12 ++++++------
inst/doc/dlnmOverview.pdf |binary
man/crossbasis.Rd | 6 +++---
man/onebasis.Rd | 2 +-
man/plot.crosspred.Rd | 4 ++--
11 files changed, 51 insertions(+), 38 deletions(-)
Title: Bayesian Projection of Life Expectancy
Diff between bayesLife versions 0.2-0 dated 2011-05-08 and 0.3-3 dated 2012-04-19
Description: Making probabilistic projections of life expectancy for
all countries of the world, using a Bayesian hierarchical
model.
Author: Hana Sevcikova, Adrian Raftery; original WinBugs code written
by Jennifer Chunn
Maintainer: Hana Sevcikova
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/mc1/k.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/mc1/z.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/mc2/Triangle.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/mc2/k.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/mc2/z.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/mc3 |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/predictions/traj_country44.rda |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/Triangle.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/k.c_country44.txt |only
bayesLife-0.2-0/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country44.txt |only
bayesLife-0.2-0/bayesLife/tests/.Rapp.history |only
bayesLife-0.3-3/bayesLife/ChangeLog | 53 +
bayesLife-0.3-3/bayesLife/DESCRIPTION | 13
bayesLife-0.3-3/bayesLife/MD5 |only
bayesLife-0.3-3/bayesLife/NAMESPACE | 20
bayesLife-0.3-3/bayesLife/R/diagnostics.R | 100 ++
bayesLife-0.3-3/bayesLife/R/functions.R | 39
bayesLife-0.3-3/bayesLife/R/get_outputs.R | 49 -
bayesLife-0.3-3/bayesLife/R/mcmc_estimate.R | 297 ++++---
bayesLife-0.3-3/bayesLife/R/mcmc_storage.R | 4
bayesLife-0.3-3/bayesLife/R/plot_functions.R | 405 +++++++---
bayesLife-0.3-3/bayesLife/R/projection_fcns.R | 244 +++++-
bayesLife-0.3-3/bayesLife/R/run_mcmc.R | 307 +++++--
bayesLife-0.3-3/bayesLife/R/wpp_data.R | 114 ++
bayesLife-0.3-3/bayesLife/R/zzz.R |only
bayesLife-0.3-3/bayesLife/data/UN2010e0F_supplemental.R |only
bayesLife-0.3-3/bayesLife/data/UN2010e0F_supplemental.txt |only
bayesLife-0.3-3/bayesLife/data/UN2010e0M_supplemental.R |only
bayesLife-0.3-3/bayesLife/data/UN2010e0M_supplemental.txt |only
bayesLife-0.3-3/bayesLife/data/loess_sd.rda |only
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/bayesLife.mcmc.meta.rda |binary
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country100.txt | 57 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country104.txt | 57 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country112.txt | 57 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country116.txt | 57 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country12.txt | 57 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country124.txt | 57 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country132.txt | 57 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/mc1/Triangle.c_country144.txt | 57 -
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bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country31.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country312.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country316.txt | 60 -
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bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country372.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country376.txt | 60 -
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bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country388.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country392.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country398.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country4.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country40.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country400.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country408.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country410.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country414.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country417.txt | 60 -
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bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country422.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country428.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country434.txt | 60 -
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bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country446.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country450.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country458.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country462.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country470.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country474.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country478.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country48.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country480.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country484.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country496.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country498.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country499.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country50.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country504.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country51.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country512.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country52.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country524.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country528.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country530.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country533.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country540.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country548.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country554.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country558.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country56.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country562.txt |only
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country578.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country583.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country586.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country591.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country598.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country600.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country604.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country608.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country616.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country620.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country626.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country630.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country634.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country638.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country64.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country642.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country643.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country662.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country670.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country678.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country68.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country682.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country686.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country688.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country70.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country702.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country703.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country704.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country705.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country706.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country724.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country732.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country736.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country740.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country752.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country756.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country76.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country760.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country762.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country764.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country776.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country780.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country784.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country788.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country792.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country795.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country8.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country804.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country807.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country818.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country826.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country830.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country84.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country840.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country850.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country858.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country860.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country862.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country882.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country887.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country90.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.c_country96.txt | 60 -
bayesLife-0.3-3/bayesLife/inst/ex-data/bayesLife.output/thinned_mcmc_2_30/mc1/z.txt | 60 -
bayesLife-0.3-3/bayesLife/man/GoF.dl.Rd |only
bayesLife-0.3-3/bayesLife/man/UN.Rd | 8
bayesLife-0.3-3/bayesLife/man/bayesLife-internal.Rd | 6
bayesLife-0.3-3/bayesLife/man/bayesLife-package.Rd | 20
bayesLife-0.3-3/bayesLife/man/bayesLife.mcmc.Rd | 6
bayesLife-0.3-3/bayesLife/man/bayesLife.mcmc.meta.Rd | 13
bayesLife-0.3-3/bayesLife/man/convert.trajectories.Rd | 14
bayesLife-0.3-3/bayesLife/man/e0.DLcurve.plot.Rd | 18
bayesLife-0.3-3/bayesLife/man/e0.coda.mcmc.list.Rd | 15
bayesLife-0.3-3/bayesLife/man/e0.diagnose.Rd | 3
bayesLife-0.3-3/bayesLife/man/e0.gap.plot.Rd |only
bayesLife-0.3-3/bayesLife/man/e0.map.Rd | 2
bayesLife-0.3-3/bayesLife/man/e0.pardensity.plot.Rd | 4
bayesLife-0.3-3/bayesLife/man/e0.partraces.plot.Rd | 9
bayesLife-0.3-3/bayesLife/man/e0.predict.Rd | 12
bayesLife-0.3-3/bayesLife/man/e0.raftery.diag.Rd | 10
bayesLife-0.3-3/bayesLife/man/e0.trajectories.plot.Rd | 36
bayesLife-0.3-3/bayesLife/man/get.e0.convergence.Rd | 4
bayesLife-0.3-3/bayesLife/man/get.e0.mcmc.Rd | 5
bayesLife-0.3-3/bayesLife/man/get.e0.parameter.traces.Rd | 10
bayesLife-0.3-3/bayesLife/man/get.e0.prediction.Rd | 27
bayesLife-0.3-3/bayesLife/man/get.e0.trajectories.Rd | 6
bayesLife-0.3-3/bayesLife/man/get.thinned.e0.mcmc.Rd | 4
bayesLife-0.3-3/bayesLife/man/joint.male.estimate.Rd |only
bayesLife-0.3-3/bayesLife/man/joint.male.predict.Rd |only
bayesLife-0.3-3/bayesLife/man/run.e0.mcmc.Rd | 52 -
bayesLife-0.3-3/bayesLife/man/run.e0.mcmc.extra.Rd | 6
bayesLife-0.3-3/bayesLife/man/summary-mcmc.Rd | 4
bayesLife-0.3-3/bayesLife/man/summary-prediction.Rd | 6
bayesLife-0.3-3/bayesLife/src |only
bayesLife-0.3-3/bayesLife/tests/run_tests.R | 1
bayesLife-0.3-3/bayesLife/tests/test_functions.R | 111 ++
1680 files changed, 45532 insertions(+), 39679 deletions(-)
Title: Graphical User Interface for bayesTFR, bayesLife and bayesPop
Diff between bayesDem versions 1.3-2 dated 2011-10-20 and 1.5-1 dated 2012-04-19
Description: Provides Graphical user interface for the packages
bayesTFR, bayesLife and bayesPop
Author: Hana Sevcikova
Maintainer: Hana Sevcikova
ChangeLog | 22 ++
DESCRIPTION | 14 -
MD5 | 37 ++--
R/LifePred.R | 12 -
R/PopPred.R |only
R/TFRpred.R | 12 -
R/bayesDem.R | 27 ++-
R/bayesDem_ini.R | 3
R/e0-cont-mcmc.R | 44 ++---
R/e0-mcmc.R | 317 ++++++++++++++++++++++-----------------
R/e0-predict.R | 185 +++++++++++++++-------
R/e0-results.R | 245 +++++++++++++++++-------------
R/handlers_and_fncs.R | 72 +++++---
R/pop-predict.R |only
R/pop-results.R |only
R/tfr-cont-mcmc.R | 38 ++--
R/tfr-mcmc.R | 388 ++++++++++++++++++++++++------------------------
R/tfr-predict.R | 138 ++++++++---------
R/tfr-results.R | 302 ++++++++++++++++++-------------------
man/bayesDem-package.Rd | 21 +-
man/bayesDem.go.Rd | 4
21 files changed, 1037 insertions(+), 844 deletions(-)
Title: Nonparametric Estimation for Multistate Models
Diff between msSurv versions 1.0-2 dated 2011-02-09 and 1.1-0 dated 2012-04-19
Description: Nonparametric estimation for right censored, left
truncated time to event data in multistate models.
Author: Nicole Ferguson
Maintainer: Guy Brock
msSurv-1.0-2/msSurv/INDEX |only
msSurv-1.0-2/msSurv/man/st.t.Rd |only
msSurv-1.1-0/msSurv/ChangeLog |only
msSurv-1.1-0/msSurv/DESCRIPTION | 20
msSurv-1.1-0/msSurv/MD5 | 36
msSurv-1.1-0/msSurv/NAMESPACE | 2
msSurv-1.1-0/msSurv/R/msSurv-Classes.R | 29
msSurv-1.1-0/msSurv/R/msSurv-Methods.R | 1120 ++++++++++++++----------
msSurv-1.1-0/msSurv/R/msSurv-internal.R | 1468 ++++++++++++++------------------
msSurv-1.1-0/msSurv/R/msSurv-user.R | 556 +++++++-----
msSurv-1.1-0/msSurv/data/LTRCdata.rda |binary
msSurv-1.1-0/msSurv/data/RCdata.rda |binary
msSurv-1.1-0/msSurv/man/EntryExit.rd | 87 +
msSurv-1.1-0/msSurv/man/LTRCdata.Rd | 126 +-
msSurv-1.1-0/msSurv/man/Pst.Rd | 51 -
msSurv-1.1-0/msSurv/man/RCdata.Rd | 67 -
msSurv-1.1-0/msSurv/man/SOPt.Rd |only
msSurv-1.1-0/msSurv/man/msSurv-class.Rd | 363 +++++--
msSurv-1.1-0/msSurv/man/msSurv.Rd | 209 ++--
19 files changed, 2264 insertions(+), 1870 deletions(-)
Title: Detection of disease-associated SNP interactions in case-parent
trio data
Diff between trio versions 1.4.24 dated 2012-02-10 and 1.4.26 dated 2012-04-19
Description: Testing SNPs and SNP interactions with a genotypic TDT.
This package furthermore contains functions for computing
pairwise values of LD measures and for identifying LD blocks,
as well as functions for setting up matched case pseudo-control
genotype data for case-parent trios in order to run trio logic
regreesion, to impute missing genotypes in trios, or to
simulate case-parent trios with disease risk dependent on SNP
interaction.
Author: Holger Schwender, Qing Li, Ingo Ruczinski
Maintainer: Holger Schwender
DESCRIPTION | 8 ++++----
MD5 | 12 ++++++------
R/getLDlarge.R | 2 +-
R/trio.permTest.R | 3 ++-
R/trioLR.R | 4 +---
R/zzz.R | 6 ++++++
inst/doc/trio.pdf |binary
7 files changed, 20 insertions(+), 15 deletions(-)
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Diff between spatstat versions 1.26-0 dated 2012-04-08 and 1.26-1 dated 2012-04-19
Description: A package for analysing spatial data, mainly Spatial Point
Patterns, including multitype/marked points and spatial
covariates, in any two-dimensional spatial region. Also
supports three-dimensional point patterns, and space-time point
patterns in any number of dimensions. Contains over 1000
functions for plotting spatial data, exploratory data analysis,
model-fitting, simulation, spatial sampling, model diagnostics,
and formal inference. Data types include point patterns, line
segment patterns, spatial windows, pixel images and
tessellations. Exploratory methods include K-functions,
nearest neighbour distance and empty space statistics, Fry
plots, pair correlation function, kernel smoothed intensity,
relative risk estimation with cross-validated bandwidth
selection, mark correlation functions, segregation indices,
mark dependence diagnostics etc. Point process models can be
fitted to point pattern data using functions ppm, kppm, slrm
similar to glm. Models may include dependence on covariates,
interpoint interaction, cluster formation and dependence on
marks. Fitted models can be simulated automatically. Also
provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation envelopes,
residuals, residual plots and Q-Q plots).
Author: Adrian Baddeley
Maintainer: Adrian Baddeley
DESCRIPTION | 32 +-
MD5 | 41 +--
NEWS | 38 +++
R/areadiff.R | 55 ++--
R/dummy.R | 77 +++---
R/envelope.R | 4
R/localK.R | 3
R/localpcf.R | 10
R/lohboot.R |only
R/primefactors.R | 40 ++-
R/scanstat.R | 55 +++-
R/suffstat.R | 4
R/vcov.ppm.R | 593 ++++++++++++++++++++++++++++++++++++++++++-----
inst/doc/getstart.pdf |binary
inst/doc/shapefiles.pdf |binary
man/Kest.Rd | 2
man/lohboot.Rd |only
man/pcf.ppp.Rd | 8
man/spatstat-internal.Rd | 11
man/spatstat-package.Rd | 7
man/varblock.Rd | 8
man/vcov.ppm.Rd | 92 ++++---
src/scan.c |only
23 files changed, 883 insertions(+), 197 deletions(-)
Title: Statistical Methods for Quality Science
Diff between qualityTools versions 1.50 dated 2011-11-23 and 1.52 dated 2012-04-19
Description: This Package contains methods associated with the Define,
Measure, Analyze, Improve and Control (i.e. DMAIC) cycle of the
Six Sigma Quality Management methodology.It covers distribution
fitting, normal and non-normal process capability indices,
techniques for Measurement Systems Analysis especially gage
capability indices and Gage Repeatability (i.e Gage RR) and
Reproducibility studies, factorial and fractional factorial
designs as well as response surface methods including the use
of desirability functions. Improvement via Six Sigma is project
based strategy that covers 5 phases: Define - Pareto Chart;
Measure - Probability and Quantile-Quantile Plots, Process
Capability Indices for various distributions and Gage RR
Analyze i.e. Pareto Chart, Multi-Vari Chart, Dot Plot; Improve
- Full and fractional factorial, response surface and mixture
designs as well as the desirability approach for simultaneous
optimization of more than one response variable. Normal, Pareto
and Lenth Plot of effects as well as Interaction Plots; Control
- Quality Control Charts can be found in the qcc package. The
focus is on teaching the statistical methodology used in the
Quality Sciences.
Author: Thomas Roth
Maintainer: Thomas Roth
qualityTools-1.50/qualityTools/inst/doc/Bilder |only
qualityTools-1.50/qualityTools/inst/doc/Sweavel.sty |only
qualityTools-1.50/qualityTools/inst/doc/vignette.bib |only
qualityTools-1.52/qualityTools/DESCRIPTION | 29
qualityTools-1.52/qualityTools/MD5 | 257 ++--
qualityTools-1.52/qualityTools/R/COM_P.R | 269 ++--
qualityTools-1.52/qualityTools/R/Com_t.r | 6
qualityTools-1.52/qualityTools/R/adSim.R |only
qualityTools-1.52/qualityTools/R/ave_t.r | 15
qualityTools-1.52/qualityTools/R/cg._g.r | 275 ++++
qualityTools-1.52/qualityTools/R/cur_t.r | 3
qualityTools-1.52/qualityTools/R/des_e.r | 39
qualityTools-1.52/qualityTools/R/dis_t.r | 217 +++
qualityTools-1.52/qualityTools/R/distr_3.r |only
qualityTools-1.52/qualityTools/R/dot_t.r | 6
qualityTools-1.52/qualityTools/R/eff_t.r | 113 +-
qualityTools-1.52/qualityTools/R/err_t.r | 21
qualityTools-1.52/qualityTools/R/gag_n.r | 124 --
qualityTools-1.52/qualityTools/R/gag_s.R | 49
qualityTools-1.52/qualityTools/R/hel_s.r | 8
qualityTools-1.52/qualityTools/R/int_qq.r |only
qualityTools-1.52/qualityTools/R/int_t.r | 185 +--
qualityTools-1.52/qualityTools/R/internals.r |only
qualityTools-1.52/qualityTools/R/min_s.r | 41
qualityTools-1.52/qualityTools/R/mix_n.r | 19
qualityTools-1.52/qualityTools/R/mul_t.r | 60 -
qualityTools-1.52/qualityTools/R/mvPlot.R |only
qualityTools-1.52/qualityTools/R/myA_r.r | 19
qualityTools-1.52/qualityTools/R/nor_t.r | 47
qualityTools-1.52/qualityTools/R/ort_s.r | 556 +++-------
qualityTools-1.52/qualityTools/R/par_l.r | 42
qualityTools-1.52/qualityTools/R/par_t.r | 41
qualityTools-1.52/qualityTools/R/pcr_r.r | 375 ++++++
qualityTools-1.52/qualityTools/R/rsm_n.r | 77 -
qualityTools-1.52/qualityTools/R/sim_c.r | 13
qualityTools-1.52/qualityTools/R/sta_n.r | 3
qualityTools-1.52/qualityTools/R/ste_t.r | 9
qualityTools-1.52/qualityTools/R/tag_e.r | 30
qualityTools-1.52/qualityTools/R/vis_2.r | 54
qualityTools-1.52/qualityTools/R/vis_n.r | 46
qualityTools-1.52/qualityTools/R/whi_t.r | 14
qualityTools-1.52/qualityTools/Rplots.pdf |binary
qualityTools-1.52/qualityTools/inst/CITATION | 3
qualityTools-1.52/qualityTools/inst/NEWS.Rd | 30
qualityTools-1.52/qualityTools/inst/doc/qualityTools.pdf |binary
qualityTools-1.52/qualityTools/inst/doc/qualityTools.rnw | 2
qualityTools-1.52/qualityTools/man/adSim.Rd |only
qualityTools-1.52/qualityTools/man/aliasTable.Rd | 7
qualityTools-1.52/qualityTools/man/as.data.frame.MSALinearity.rd | 2
qualityTools-1.52/qualityTools/man/as.data.frame.desOpt.Rd | 2
qualityTools-1.52/qualityTools/man/as.data.frame.facDesign.Rd | 3
qualityTools-1.52/qualityTools/man/as.data.frame.gageRR.Rd | 2
qualityTools-1.52/qualityTools/man/as.data.frame.mixDesign.Rd | 3
qualityTools-1.52/qualityTools/man/as.data.frame.steepAscentDesign.Rd | 3
qualityTools-1.52/qualityTools/man/as.data.frame.taguchiDesign.Rd | 3
qualityTools-1.52/qualityTools/man/averagePlot.Rd | 15
qualityTools-1.52/qualityTools/man/block-methods.rd | 3
qualityTools-1.52/qualityTools/man/blocking.Rd | 7
qualityTools-1.52/qualityTools/man/cg.rd | 30
qualityTools-1.52/qualityTools/man/code2real.Rd | 2
qualityTools-1.52/qualityTools/man/compPlot.Rd | 15
qualityTools-1.52/qualityTools/man/confounds.Rd | 2
qualityTools-1.52/qualityTools/man/contourPlot.Rd | 7
qualityTools-1.52/qualityTools/man/contourPlot3.Rd | 18
qualityTools-1.52/qualityTools/man/cp.rd | 13
qualityTools-1.52/qualityTools/man/desOpt-class.Rd | 3
qualityTools-1.52/qualityTools/man/desirability-class.Rd | 1
qualityTools-1.52/qualityTools/man/desirability.Rd | 16
qualityTools-1.52/qualityTools/man/desires-methods.Rd | 3
qualityTools-1.52/qualityTools/man/dgamma3.Rd |only
qualityTools-1.52/qualityTools/man/distr-class.Rd | 1
qualityTools-1.52/qualityTools/man/distrCollection-class.Rd | 1
qualityTools-1.52/qualityTools/man/distribution.Rd | 1
qualityTools-1.52/qualityTools/man/dlnorm3.Rd |only
qualityTools-1.52/qualityTools/man/doeFactor-class.Rd | 1
qualityTools-1.52/qualityTools/man/dotPlot.Rd | 12
qualityTools-1.52/qualityTools/man/dweibull3.Rd |only
qualityTools-1.52/qualityTools/man/effectPlot.Rd | 12
qualityTools-1.52/qualityTools/man/errorPlot.Rd | 15
qualityTools-1.52/qualityTools/man/facDesign-class.Rd | 1
qualityTools-1.52/qualityTools/man/facDesign.Rd | 33
qualityTools-1.52/qualityTools/man/factors-methods.Rd | 3
qualityTools-1.52/qualityTools/man/fits-methods.rd | 3
qualityTools-1.52/qualityTools/man/fracChoose.Rd | 8
qualityTools-1.52/qualityTools/man/fracDesign.Rd | 38
qualityTools-1.52/qualityTools/man/gageLin.Rd | 24
qualityTools-1.52/qualityTools/man/gageLinDesign.Rd | 13
qualityTools-1.52/qualityTools/man/gageRR-class.rd | 4
qualityTools-1.52/qualityTools/man/gageRR.Rd | 13
qualityTools-1.52/qualityTools/man/gageRRDesign.Rd | 8
qualityTools-1.52/qualityTools/man/identity-methods.Rd | 3
qualityTools-1.52/qualityTools/man/interactionPlot.Rd | 18
qualityTools-1.52/qualityTools/man/mixDesign.Rd | 23
qualityTools-1.52/qualityTools/man/mvPlot.Rd | 150 +-
qualityTools-1.52/qualityTools/man/normalPlot.Rd | 42
qualityTools-1.52/qualityTools/man/optimum.Rd | 35
qualityTools-1.52/qualityTools/man/overall.Rd | 5
qualityTools-1.52/qualityTools/man/paretoChart.Rd | 12
qualityTools-1.52/qualityTools/man/paretoPlot.Rd | 32
qualityTools-1.52/qualityTools/man/pcr.Rd | 16
qualityTools-1.52/qualityTools/man/plot-methods.Rd | 9
qualityTools-1.52/qualityTools/man/ppPlot.Rd | 22
qualityTools-1.52/qualityTools/man/print.adtest.Rd | 2
qualityTools-1.52/qualityTools/man/qqPlot.Rd | 21
qualityTools-1.52/qualityTools/man/qualityTools-package.Rd | 9
qualityTools-1.52/qualityTools/man/randomize.Rd | 2
qualityTools-1.52/qualityTools/man/response-methods.rd | 11
qualityTools-1.52/qualityTools/man/rsmDesign.Rd | 6
qualityTools-1.52/qualityTools/man/runOrd-methods.rd | 5
qualityTools-1.52/qualityTools/man/sigma-methods.rd | 3
qualityTools-1.52/qualityTools/man/star-methods.rd | 6
qualityTools-1.52/qualityTools/man/starDesign.Rd | 11
qualityTools-1.52/qualityTools/man/steepAscent-class.rd | 1
qualityTools-1.52/qualityTools/man/steepAscent.rd | 4
qualityTools-1.52/qualityTools/man/summaryFits.Rd | 2
qualityTools-1.52/qualityTools/man/taguchiDesign-class.rd | 1
qualityTools-1.52/qualityTools/man/taguchiDesign.Rd | 3
qualityTools-1.52/qualityTools/man/taguchiFactor-class.rd | 1
qualityTools-1.52/qualityTools/man/tolerance-methods.rd | 6
qualityTools-1.52/qualityTools/man/types-methods.Rd | 3
qualityTools-1.52/qualityTools/man/units-methods.Rd | 3
qualityTools-1.52/qualityTools/man/whiskersPlot.Rd | 14
qualityTools-1.52/qualityTools/man/wirePlot.Rd | 6
qualityTools-1.52/qualityTools/man/wirePlot3.Rd | 17
qualityTools-1.52/qualityTools/vignettes |only
125 files changed, 2349 insertions(+), 1603 deletions(-)
Title: Network representations of relationships in data
Diff between qgraph versions 1.0.2 dated 2012-03-08 and 1.0.3 dated 2012-04-19
Description: The qgraph package can be used to visualize data as
networks.
Author: Sacha Epskamp, Angelique O. J. Cramer, Lourens J. Waldorp,
Verena D. Schmittmann and Denny Borsboom
Maintainer: Sacha Epskamp
COPYRIGHTS | 2 -
DESCRIPTION | 10 ++++-----
MD5 | 14 ++++++------
NEWS | 37 ++++++++++++++++++---------------
R/centrality.R | 7 ++++--
R/qgraph.R | 60 +++++++++++++++++++++++++++++++++++++++++++-----------
man/centrality.Rd | 2 -
man/qgraph.Rd | 1
8 files changed, 89 insertions(+), 44 deletions(-)
Title: Practical Numerical Math Functions
Diff between pracma versions 1.0.1 dated 2012-03-12 and 1.0.5 dated 2012-04-19
Description: Implementations of functions in numerical analysis as R
scripts, with a special view on on optimization and time series
routines. Uses Matlab/Octave function names where appropriate
to simplify porting.
Author: Hans W Borchers
Maintainer: HwB
pracma-1.0.1/pracma/R/interval.R |only
pracma-1.0.1/pracma/man/interval.Rd |only
pracma-1.0.5/pracma/DESCRIPTION | 10 ++--
pracma-1.0.5/pracma/MD5 | 43 ++++++++++-------
pracma-1.0.5/pracma/NEWS | 26 +++++++++-
pracma-1.0.5/pracma/R/accumarray.R | 56 +++++++++++++++++------
pracma-1.0.5/pracma/R/cubicspline.R |only
pracma-1.0.5/pracma/R/invlap.R |only
pracma-1.0.5/pracma/R/perms.R | 27 +++++++++--
pracma-1.0.5/pracma/R/pp.R |only
pracma-1.0.5/pracma/R/ppfit.R |only
pracma-1.0.5/pracma/R/primes.R | 22 +++++++++
pracma-1.0.5/pracma/R/rand.R | 37 ++++++++++++---
pracma-1.0.5/pracma/R/tictoc.R |only
pracma-1.0.5/pracma/R/zzz.R | 14 +++++
pracma-1.0.5/pracma/data/titanium.rda |binary
pracma-1.0.5/pracma/inst/NEWS.Rd | 3 -
pracma-1.0.5/pracma/man/accumarray.Rd | 79 +++++++++++++++++++++++----------
pracma-1.0.5/pracma/man/cubicspline.Rd |only
pracma-1.0.5/pracma/man/interp1.Rd | 2
pracma-1.0.5/pracma/man/invlap.Rd |only
pracma-1.0.5/pracma/man/invperm.Rd |only
pracma-1.0.5/pracma/man/pp.Rd |only
pracma-1.0.5/pracma/man/ppfit.Rd |only
pracma-1.0.5/pracma/man/primes.Rd | 49 +++++++++++++++++---
pracma-1.0.5/pracma/man/rand.Rd | 35 +++++++++++++-
pracma-1.0.5/pracma/man/randperm.Rd | 15 +++---
pracma-1.0.5/pracma/man/rkf54.Rd | 2
pracma-1.0.5/pracma/man/tictoc.Rd |only
29 files changed, 325 insertions(+), 95 deletions(-)
Title: Multivariate outlier detection based on robust methods
Diff between mvoutlier versions 1.9.4 dated 2011-11-07 and 1.9.7 dated 2012-04-19
Description: This packages was made for multivariate outlier detection.
Author: Peter Filzmoser
Maintainer: Peter Filzmoser
mvoutlier-1.9.4/mvoutlier/R/cor.plot.R |only
mvoutlier-1.9.7/mvoutlier/DESCRIPTION | 15 +++++-----
mvoutlier-1.9.7/mvoutlier/MD5 | 34 ++++++++++++++++--------
mvoutlier-1.9.7/mvoutlier/NAMESPACE | 5 ++-
mvoutlier-1.9.7/mvoutlier/R/corr.plot.R |only
mvoutlier-1.9.7/mvoutlier/R/locoutNeighbor.R |only
mvoutlier-1.9.7/mvoutlier/R/locoutPercent.R |only
mvoutlier-1.9.7/mvoutlier/R/locoutSort.R |only
mvoutlier-1.9.7/mvoutlier/R/map.plot.R | 4 +-
mvoutlier-1.9.7/mvoutlier/data/X.rda |only
mvoutlier-1.9.7/mvoutlier/data/Y.rda |only
mvoutlier-1.9.7/mvoutlier/data/dat.rda |only
mvoutlier-1.9.7/mvoutlier/man/X.Rd |only
mvoutlier-1.9.7/mvoutlier/man/Y.Rd |only
mvoutlier-1.9.7/mvoutlier/man/bhorizon.Rd | 2 -
mvoutlier-1.9.7/mvoutlier/man/bssbot.Rd | 2 -
mvoutlier-1.9.7/mvoutlier/man/bsstop.Rd | 2 -
mvoutlier-1.9.7/mvoutlier/man/chorizon.Rd | 2 -
mvoutlier-1.9.7/mvoutlier/man/cor.plot.Rd | 10 +++----
mvoutlier-1.9.7/mvoutlier/man/dat.Rd |only
mvoutlier-1.9.7/mvoutlier/man/humus.Rd | 2 -
mvoutlier-1.9.7/mvoutlier/man/locoutNeighbor.Rd |only
mvoutlier-1.9.7/mvoutlier/man/locoutPercent.Rd |only
mvoutlier-1.9.7/mvoutlier/man/locoutSort.Rd |only
mvoutlier-1.9.7/mvoutlier/man/moss.Rd | 2 -
25 files changed, 47 insertions(+), 33 deletions(-)
Title: Estimation for multivariate normal and Student-t data with
monotone missingness
Diff between monomvn versions 1.8-9 dated 2012-01-07 and 1.8-10 dated 2012-04-19
Description: Estimation of multivariate normal and student-t data of
arbitrary dimension where the pattern of missing data is
monotone. Through the use of parsimonious/shrinkage
regressions (plsr, pcr, lasso, ridge, etc.), where standard
regressions fail, the package can handle a nearly arbitrary
amount of missing data. The current version supports maximum
likelihood inference and a full Bayesian approach employing
scale-mixtures for the lasso (double-exponential) and
Normal-Gamma priors, and Student-t errors. Monotone data
augmentation extends this Bayesian approach to arbitrary
missingness patterns. A fully functional standalone interface
to the Bayesian lasso (from Park & Casella), Normal-Gamma (from
Griffin & Brown), and ridge regression with model selection via
Reversible Jump, and student-t errors (from Geweke) is also
provided
Author: Robert B. Gramacy
Maintainer: Robert B. Gramacy
ChangeLog | 6 ++++
DESCRIPTION | 41 +++++++++++++++++----------------
MD5 | 56 ++++++++++++++++++++++-----------------------
R/blasso.R | 16 +++++++++----
R/bmonomvn.R | 14 ++++++++++-
data/cement.rda |binary
man/blasso.Rd | 4 +--
man/blasso.s3.Rd | 4 +--
man/bmonomvn.Rd | 4 +--
man/cement.Rd | 2 -
man/default.QP.Rd | 2 -
man/metrics.Rd | 4 +--
man/monomvn-internal.Rd | 2 -
man/monomvn-package.Rd | 6 ++--
man/monomvn.Rd | 4 +--
man/monomvn.s3.Rd | 4 +--
man/monomvn.solve.QP.Rd | 2 -
man/plot.monomvn.Rd | 4 +--
man/posdef.approx.Rd | 4 +--
man/randmvn.Rd | 2 -
man/regress.Rd | 4 +--
man/returns.Rd | 2 -
man/rmono.Rd | 4 +--
src/blasso.cc | 59 +++++++++++++++++++++++++++---------------------
src/bmonomvn.cc | 45 +++++++++++++++++++++++++-----------
src/matrix.c | 13 ++++------
src/nu.c | 8 +++---
src/rhelp.c | 9 +++++--
src/rhelp.h | 2 +
29 files changed, 193 insertions(+), 134 deletions(-)
Title: GWAS Quality Control
Diff between GWAtoolbox versions 2.0.1 dated 2012-01-27 and 2.0.2 dated 2012-04-19
Description: Controls for duplicated IDs, distribution of betas, SEs,
etc.
Author: Daniel Taliun
Maintainer: Daniel Taliun
DESCRIPTION | 10 +++++-----
MD5 | 20 ++++++++++----------
R/PLOT.R | 4 ++--
inst/doc/GWAtoolbox.Rnw | 2 +-
inst/doc/GWAtoolbox.pdf |binary
src/GWAtoolbox.cpp | 14 +++++++-------
src/Makevars | 2 +-
src/auxiliary/Makefile | 2 +-
src/gwasqc/libs/analyzer/Analyzer.cpp | 14 +++++++-------
src/gwasqc/libs/metas/MetaFiltered.cpp | 4 +++-
src/gwasqc/libs/plots/Boxplot.cpp | 2 +-
11 files changed, 38 insertions(+), 36 deletions(-)
Title: A Package for Performing a Bayesian Analysis of Change Point
Problems
Diff between bcp versions 3.0.0 dated 2011-09-16 and 3.0.1 dated 2012-04-19
Description: This package provides an implementation of an
approximation to the Barry and Hartigan (1993) product
partition model for the normal errors change point problem
using Markov Chain Monte Carlo. It also extends the
methodology to independent multivariate series with an assumed
common change point structure.
Author: Chandra Erdman and John W. Emerson
Maintainer: John W. Emerson
DESCRIPTION | 11 ++++++-----
MD5 | 22 +++++++++++-----------
NAMESPACE | 2 +-
R/output.R | 16 ++++++++--------
man/bcp.Rd | 4 ++--
man/fitted.bcp.Rd | 2 +-
man/plot.bcp.Rd | 6 +++---
man/plot.bcp.legacy.Rd | 10 +++++-----
man/residuals.bcp.Rd | 2 +-
man/summary.bcp.Rd | 4 ++--
src/Cbcp.cpp | 2 +-
src/Makevars.win | 8 ++++----
12 files changed, 45 insertions(+), 44 deletions(-)
Title: Data Modelling with Additive Bayesian Networks
Diff between abn versions 0.5-1 dated 2011-11-17 and 0.7 dated 2012-04-19
Description: This library provides computational routines to help
determine optimal Bayesian Network models for a given data set,
where these models are used to identify all statistical
dependencies present in messy, complex data. The usual term
used to describe this model selection process is structure
discovery, or more generally, data mining. Currently, a
standard heuristic search and order based exact search are
implemented, across two different types of Bayesian Network
model: i) the classical (conjugate) contingency formulation for
observations comprising of binary or multinomial variables; and
ii) an additive formulation where each node in the network is
modelled by a generalised linear regression model and this
formulation applies to observations comprising of binary and/or
Gaussian variables, where a logistic link function is used in
the former. The additive formulation is analogous to searching
for the most appropriate multidimensional Bayesian regression
model of the data.
Author: Fraser Lewis
Maintainer: Fraser Lewis
abn-0.5-1/abn/R/prune_nets.r |only
abn-0.5-1/abn/inst/doc/Rcode_helper.R |only
abn-0.5-1/abn/inst/doc/abn.OLDRnw |only
abn-0.5-1/abn/inst/doc/abn.Rnw |only
abn-0.5-1/abn/inst/doc/abn.bbl |only
abn-0.5-1/abn/inst/doc/abn.bib |only
abn-0.5-1/abn/inst/doc/abn.blg |only
abn-0.5-1/abn/inst/doc/dagcon.dot |only
abn-0.5-1/abn/inst/doc/dagcon.pdf |only
abn-0.5-1/abn/inst/doc/jss.bst |only
abn-0.5-1/abn/inst/doc/jss.cls |only
abn-0.5-1/abn/inst/doc/mydag.pdf |only
abn-0.5-1/abn/inst/doc/mydag_all.pdf |only
abn-0.5-1/abn/inst/doc/mydagcts.pdf |only
abn-0.5-1/abn/inst/doc/var33_MASTER.pdf |only
abn-0.5-1/abn/man/prune.nets.Rd |only
abn-0.7/abn/DESCRIPTION | 31 ++++++--
abn-0.7/abn/MD5 | 100 ++++++++++++++++++----------
abn-0.7/abn/NAMESPACE | 8 +-
abn-0.7/abn/R/allnodesabn.r |only
abn-0.7/abn/R/allnodesbn.r |only
abn-0.7/abn/R/arcfreq.r |only
abn-0.7/abn/R/findmostprobablebn.r |only
abn-0.7/abn/R/fitabn.r | 20 +++--
abn-0.7/abn/R/getmarginal.r | 17 +++-
abn-0.7/abn/R/getposteriorfeaturesbn.r |only
abn-0.7/abn/R/hillsearchabn.r | 28 ++++---
abn-0.7/abn/R/searchabn.r | 28 ++++---
abn-0.7/abn/R/unique_nets.r | 3
abn-0.7/abn/data/pigs1par.RData |only
abn-0.7/abn/inst/bootstrapping_example |only
abn-0.7/abn/inst/doc/abn.pdf |binary
abn-0.7/abn/man/allnodesabn.Rd |only
abn-0.7/abn/man/allnodesbn.Rd |only
abn-0.7/abn/man/arcfreq.Rd |only
abn-0.7/abn/man/findmostprobablebn.Rd |only
abn-0.7/abn/man/fitabn.Rd | 8 +-
abn-0.7/abn/man/fitbn.Rd | 2
abn-0.7/abn/man/getmarginal.Rd | 12 +--
abn-0.7/abn/man/getposteriorfeaturesbn.Rd |only
abn-0.7/abn/man/hillsearchabn.Rd | 7 +
abn-0.7/abn/man/hillsearchbn.Rd | 2
abn-0.7/abn/man/pigs.1par.rd |only
abn-0.7/abn/man/searchabn.Rd | 9 +-
abn-0.7/abn/man/searchbn.Rd | 2
abn-0.7/abn/man/unique.nets.Rd | 2
abn-0.7/abn/src/allnodesbn.c |only
abn-0.7/abn/src/allnodesbn_additive.c |only
abn-0.7/abn/src/getposterior_features.c |only
abn-0.7/abn/src/getposterior_features_max.c |only
abn-0.7/abn/src/makefile.customunix | 17 ++++
abn-0.7/abn/src/mobius.c |only
abn-0.7/abn/src/mobius.h |only
abn-0.7/abn/vignettes |only
54 files changed, 196 insertions(+), 100 deletions(-)
Title: Paleontological and Phylogenetic Analyses of Evolution
Diff between paleotree versions 1.2 dated 2012-02-23 and 1.3 dated 2012-04-19
Description: Analyzes, time-scales and simulates phylogenies of
extinct/fossil lineages. Also calculates diversity curves for
stratigraphic range data and phylogenies.
Author: David Bapst
Maintainer: David Bapst
paleotree-1.2/paleotree/R/functions_master_02-17-12.R |only
paleotree-1.2/paleotree/man/droppingBranches.Rd |only
paleotree-1.3/paleotree/ChangeLog | 16 ++
paleotree-1.3/paleotree/DESCRIPTION | 17 +-
paleotree-1.3/paleotree/MD5 | 50 ++++----
paleotree-1.3/paleotree/R/functions_master.R |only
paleotree-1.3/paleotree/man/DiversityCurves.Rd | 72 +++++++-----
paleotree-1.3/paleotree/man/SamplingConv.Rd | 20 +--
paleotree-1.3/paleotree/man/binTimeData.Rd | 42 ++++---
paleotree-1.3/paleotree/man/cladogeneticTraitCont.Rd |only
paleotree-1.3/paleotree/man/compareTimescaling.Rd |only
paleotree-1.3/paleotree/man/degradeTree.Rd | 11 +
paleotree-1.3/paleotree/man/depthRainbow.Rd | 4
paleotree-1.3/paleotree/man/expandTaxonTree.Rd | 32 ++---
paleotree-1.3/paleotree/man/getSampProbDisc.Rd | 91 ++++++++-------
paleotree-1.3/paleotree/man/getSampRateCont.Rd | 60 +++++-----
paleotree-1.3/paleotree/man/modifyTerminalBranches.Rd |only
paleotree-1.3/paleotree/man/multiDiv.Rd | 44 ++++---
paleotree-1.3/paleotree/man/paleotree-package.Rd | 47 +++----
paleotree-1.3/paleotree/man/plotTraitgram.Rd | 11 -
paleotree-1.3/paleotree/man/sampleRanges.Rd | 99 +++++++++++++---
paleotree-1.3/paleotree/man/simFossilTaxa.Rd | 107 +++++++++++-------
paleotree-1.3/paleotree/man/simPaleoTrees.Rd | 25 ++--
paleotree-1.3/paleotree/man/srcTimescaling.Rd | 83 +++++++------
paleotree-1.3/paleotree/man/taxa2cladogram.Rd | 34 ++++-
paleotree-1.3/paleotree/man/taxa2phylo.Rd | 32 ++++-
paleotree-1.3/paleotree/man/timePaleoPhy.Rd | 101 +++++++++-------
paleotree-1.3/paleotree/man/timeSliceTree.Rd | 22 ++-
paleotree-1.3/paleotree/man/unitLengthTree.Rd | 8 -
29 files changed, 624 insertions(+), 404 deletions(-)
Title: Multinomial Diversity Model
Diff between MDM versions 1.0 dated 2011-11-25 and 1.1 dated 2012-04-19
Description: The multinomial diversity model is a toolbox for relating
diversity to complex predictors. It is based on (1) Shannon
diversity; (2) the multinomial logit model, and (3) the link
between Shannon diversity and the log-likelihood of the MLM.
Author: Glenn De'ath
Maintainer: Glenn De'ath
CHANGES |only
DESCRIPTION | 13 ++++++++-----
MD5 | 7 ++++---
R/mdm.R | 17 ++++++++++++-----
man/mdm.Rd | 4 +++-
5 files changed, 27 insertions(+), 14 deletions(-)