Title: Advanced Data Analysis of T Cell Receptor Repertoires
Description: Platform for the advanced analysis of T cell receptor repertoires data and visualisation of the analysis results.
Author: Vadim Nazarov
Maintainer: Vadim Nazarov <vdm.nazarov@gmail.com>
Diff between tcR versions 1.3 dated 2015-03-21 and 2.0 dated 2015-05-14
tcR-1.3/tcR/inst/doc/tcrvignette.Rnw |only tcR-1.3/tcR/inst/doc/tcrvignette.pdf |only tcR-1.3/tcR/man/freq.segments.Rd |only tcR-1.3/tcR/man/intersect.Rd |only tcR-1.3/tcR/man/mitcr.stats.Rd |only tcR-1.3/tcR/man/vis.V.usage.Rd |only tcR-1.3/tcR/vignettes/tcrvignette.Rnw |only tcR-2.0/tcR/DESCRIPTION | 16 - tcR-2.0/tcR/MD5 | 208 +++++++------ tcR-2.0/tcR/NAMESPACE | 4 tcR-2.0/tcR/R/crosses.R | 57 +-- tcR-2.0/tcR/R/dataproc.R | 38 +- tcR-2.0/tcR/R/datatools.R | 71 ++++ tcR-2.0/tcR/R/diversity.R | 20 - tcR-2.0/tcR/R/docdata.R | 50 +-- tcR-2.0/tcR/R/filters.R | 2 tcR-2.0/tcR/R/graph.R | 63 +++- tcR-2.0/tcR/R/infoanalysis.R | 71 ++-- tcR-2.0/tcR/R/input.R | 26 - tcR-2.0/tcR/R/kmers.R | 14 tcR-2.0/tcR/R/measures.R | 47 +-- tcR-2.0/tcR/R/plots.R | 230 ++++++--------- tcR-2.0/tcR/R/repdiversity.R |only tcR-2.0/tcR/R/repoverlap.R |only tcR-2.0/tcR/R/segments.R | 249 ++++++++-------- tcR-2.0/tcR/R/shared.R | 81 +++-- tcR-2.0/tcR/R/spectrum.R | 26 - tcR-2.0/tcR/R/stats.R | 84 ++--- tcR-2.0/tcR/R/strtools.R | 18 - tcR-2.0/tcR/build/vignette.rds |binary tcR-2.0/tcR/data/twa.rda |binary tcR-2.0/tcR/data/twb.rda |binary tcR-2.0/tcR/inst/crossanalysis.report.Rmd | 39 +- tcR-2.0/tcR/inst/doc/tcrvignette.R | 417 ++++++++++++---------------- tcR-2.0/tcR/inst/doc/tcrvignette.Rmd |only tcR-2.0/tcR/inst/doc/tcrvignette.html |only tcR-2.0/tcR/inst/library.report.Rmd | 21 - tcR-2.0/tcR/man/AA_TABLE.Rd | 2 tcR-2.0/tcR/man/apply.symm.Rd | 7 tcR-2.0/tcR/man/assymetry.Rd | 2 tcR-2.0/tcR/man/barcodes.to.reads.Rd | 6 tcR-2.0/tcR/man/beta.prob.Rd | 2 tcR-2.0/tcR/man/bootstrap.tcr.Rd | 6 tcR-2.0/tcR/man/check.distribution.Rd | 13 tcR-2.0/tcR/man/clonal.space.homeostasis.Rd | 2 tcR-2.0/tcR/man/cloneset.stats.Rd |only tcR-2.0/tcR/man/codon.variants.Rd | 2 tcR-2.0/tcR/man/column.summary.Rd | 8 tcR-2.0/tcR/man/contamination.stats.Rd | 4 tcR-2.0/tcR/man/convergence.index.Rd | 2 tcR-2.0/tcR/man/cosine.sharing.Rd | 4 tcR-2.0/tcR/man/cosine.similarity.Rd | 22 + tcR-2.0/tcR/man/entropy.Rd | 12 tcR-2.0/tcR/man/entropy.seg.Rd | 36 +- tcR-2.0/tcR/man/find.clonotypes.Rd | 8 tcR-2.0/tcR/man/find.similar.sequences.Rd | 4 tcR-2.0/tcR/man/gc.content.Rd | 2 tcR-2.0/tcR/man/geneUsage.Rd |only tcR-2.0/tcR/man/generate.kmers.Rd | 2 tcR-2.0/tcR/man/generate.tcr.Rd | 2 tcR-2.0/tcR/man/get.all.substrings.Rd | 4 tcR-2.0/tcR/man/get.deletions.alpha.Rd | 2 tcR-2.0/tcR/man/get.inframes.Rd | 4 tcR-2.0/tcR/man/get.kmers.Rd | 6 tcR-2.0/tcR/man/get.n.barcodes.Rd | 6 tcR-2.0/tcR/man/gibbs.sampler.Rd | 6 tcR-2.0/tcR/man/group.clonotypes.Rd | 4 tcR-2.0/tcR/man/has.class.Rd | 2 tcR-2.0/tcR/man/intersectClonesets.Rd |only tcR-2.0/tcR/man/inverse.simpson.Rd | 10 tcR-2.0/tcR/man/kmer.profile.Rd | 4 tcR-2.0/tcR/man/kmer.table.Rd | 2 tcR-2.0/tcR/man/loglikelihood.Rd | 2 tcR-2.0/tcR/man/matrixdiagcopy.Rd | 2 tcR-2.0/tcR/man/mutated.neighbours.Rd | 2 tcR-2.0/tcR/man/mutation.network.Rd | 4 tcR-2.0/tcR/man/parse.cloneset.Rd | 4 tcR-2.0/tcR/man/parse.folder.Rd | 12 tcR-2.0/tcR/man/pca.segments.Rd | 12 tcR-2.0/tcR/man/permutedf.Rd | 2 tcR-2.0/tcR/man/rarefaction.Rd | 8 tcR-2.0/tcR/man/repDiversity.Rd |only tcR-2.0/tcR/man/repOverlap.Rd |only tcR-2.0/tcR/man/revcomp.Rd | 4 tcR-2.0/tcR/man/reverse.string.Rd | 2 tcR-2.0/tcR/man/sample.clones.Rd | 4 tcR-2.0/tcR/man/sample2D.Rd | 2 tcR-2.0/tcR/man/segments.alphabets.Rd | 50 +-- tcR-2.0/tcR/man/segments.list.Rd | 2 tcR-2.0/tcR/man/set.group.vector.Rd | 4 tcR-2.0/tcR/man/set.pb.Rd | 2 tcR-2.0/tcR/man/set.people.vector.Rd | 2 tcR-2.0/tcR/man/set.rank.Rd | 2 tcR-2.0/tcR/man/shared.repertoire.Rd | 29 + tcR-2.0/tcR/man/spectratyping.Rd | 12 tcR-2.0/tcR/man/startmitcr.Rd | 2 tcR-2.0/tcR/man/tailbound.proportion.Rd | 2 tcR-2.0/tcR/man/top.cross.Rd | 18 - tcR-2.0/tcR/man/top.fun.Rd | 4 tcR-2.0/tcR/man/twinsdata.Rd | 2 tcR-2.0/tcR/man/vis.clonal.dynamics.Rd | 4 tcR-2.0/tcR/man/vis.clonal.space.Rd | 6 tcR-2.0/tcR/man/vis.count.len.Rd | 6 tcR-2.0/tcR/man/vis.gene.usage.Rd |only tcR-2.0/tcR/man/vis.group.boxplot.Rd | 6 tcR-2.0/tcR/man/vis.heatmap.Rd | 14 tcR-2.0/tcR/man/vis.kmer.histogram.Rd | 2 tcR-2.0/tcR/man/vis.logo.Rd | 4 tcR-2.0/tcR/man/vis.number.count.Rd | 8 tcR-2.0/tcR/man/vis.pca.Rd | 2 tcR-2.0/tcR/man/vis.radarlike.Rd | 4 tcR-2.0/tcR/man/vis.rarefaction.Rd | 4 tcR-2.0/tcR/man/vis.top.proportions.Rd | 2 tcR-2.0/tcR/vignettes/tcrvignette.Rmd |only 114 files changed, 1193 insertions(+), 1110 deletions(-)
Title: Evaluation of Surrogate Endpoints in Clinical Trials
Description: In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a biomarker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's 7th Framework Programme for research, technological development and demonstration under Grant Agreement no 602552.
Author: Wim Van der Elst, Ariel Alonso & Geert Molenberghs
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>
Diff between Surrogate versions 0.1-5 dated 2015-03-26 and 0.1-6 dated 2015-05-14
Surrogate-0.1-5/Surrogate/R/summ.ICA.By.Mon.R |only Surrogate-0.1-5/Surrogate/man/summ.ICA.By.Mon.Rd |only Surrogate-0.1-6/Surrogate/DESCRIPTION | 8 Surrogate-0.1-6/Surrogate/MD5 | 72 Surrogate-0.1-6/Surrogate/NEWS | 6 Surrogate-0.1-6/Surrogate/R/CausalDiagramBinBin.R | 4 Surrogate-0.1-6/Surrogate/R/ICA.BinBin.Grid.Sample.R | 2 Surrogate-0.1-6/Surrogate/R/ICABinBinCounterAssum.R | 14 Surrogate-0.1-6/Surrogate/R/MarginalProbs.R | 7 Surrogate-0.1-6/Surrogate/R/SimDataSTSBinBin.R | 6 Surrogate-0.1-6/Surrogate/R/Test.Mono.R |only Surrogate-0.1-6/Surrogate/R/plot_ICABinBin.R | 1327 +++++++++++-- Surrogate-0.1-6/Surrogate/R/plot_SPPBinBin.R | 2 Surrogate-0.1-6/Surrogate/R/summary_ICABinBin.R | 111 + Surrogate-0.1-6/Surrogate/man/BifixedContCont.Rd | 2 Surrogate-0.1-6/Surrogate/man/BimixedContCont.Rd | 20 Surrogate-0.1-6/Surrogate/man/CausalDiagramBinBin.Rd | 30 Surrogate-0.1-6/Surrogate/man/CausalDiagramContCont.Rd | 5 Surrogate-0.1-6/Surrogate/man/FixedContContIT.Rd | 3 Surrogate-0.1-6/Surrogate/man/ICA.BinBin.Grid.Full.Rd | 6 Surrogate-0.1-6/Surrogate/man/ICA.BinBin.Grid.Sample.Rd | 6 Surrogate-0.1-6/Surrogate/man/ICA.Sample.ContCont.Rd | 5 Surrogate-0.1-6/Surrogate/man/ICABinBin.Rd | 8 Surrogate-0.1-6/Surrogate/man/ICABinBinCounterAssum.Rd | 45 Surrogate-0.1-6/Surrogate/man/ICAContCont.Rd | 14 Surrogate-0.1-6/Surrogate/man/MICA.Sample.ContCont.Rd | 11 Surrogate-0.1-6/Surrogate/man/MICAContCont.Rd | 13 Surrogate-0.1-6/Surrogate/man/MixedContContIT.Rd | 6 Surrogate-0.1-6/Surrogate/man/SPP.BinBin.Rd | 10 Surrogate-0.1-6/Surrogate/man/Single.Trial.RE.AA.Rd | 3 Surrogate-0.1-6/Surrogate/man/Test.Mono.Rd |only Surrogate-0.1-6/Surrogate/man/UnifixedContCont.Rd | 2 Surrogate-0.1-6/Surrogate/man/UnimixedContCont.Rd | 2 Surrogate-0.1-6/Surrogate/man/plot.CausalInference.Rd | 15 Surrogate-0.1-6/Surrogate/man/plot.ICABinBin.Rd | 29 Surrogate-0.1-6/Surrogate/man/plot.InformationTheoretic.Rd | 18 Surrogate-0.1-6/Surrogate/man/plot.MetaAnalytic.Rd | 22 Surrogate-0.1-6/Surrogate/man/plot.MinSurrContCont.Rd | 9 Surrogate-0.1-6/Surrogate/man/plot.SPPBinBin.Rd | 7 39 files changed, 1511 insertions(+), 339 deletions(-)
Title: Measures of Risk for the Compound Poisson Risk Process with
Diffusion
Description: The main purpose of this package is to provide saddlepoint
approximations to some measures of risk, based on the compound Poisson risk
process that is perturbed by a Brownian motion. Various approximation
methods for the probability of ruin are also included. Furthermore, exact
values of both the risk measures as well as the probability of ruin are
available if the individual claims follow a hypo-exponential distribution
(i. e., if it can be represented as a sum of independent exponentially
distributed random variables with different rate parameters).
Author: Benjamin Baumgartner [aut, cre],
Riccardo Gatto [ctb, ths],
Sebastian Szugat [ctb]
Maintainer: Benjamin Baumgartner <benjamin@baumgrt.com>
Diff between sdprisk versions 1.1-0 dated 2015-04-29 and 1.1-3 dated 2015-05-14
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NAMESPACE | 1 + man/hypoexp.Rd | 13 ++++++++----- 4 files changed, 16 insertions(+), 12 deletions(-)
Title: Probability Models for Ranking Data
Description: Descriptive statistics (mean rank, pairwise frequencies, and marginal matrix), Analytic Hierarchy Process models (with Saaty's and Koczkodaj's inconsistencies), probability models (Luce models, distance-based models, and rank-ordered logit models) and visualization with multidimensional preference analysis for ranking data are provided. Current, only complete rankings are supported by this package.
Author: Paul H. Lee and Philip L. H. Yu
Maintainer: Paul H. Lee <honglee@graduate.hku.hk>
Diff between pmr versions 1.2.4 dated 2014-05-17 and 1.2.5 dated 2015-05-14
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/rankplot.R | 40 ++++++++++++++++++++-------------------- R/rol.R | 2 +- man/pmr-package.Rd | 8 ++++---- 5 files changed, 33 insertions(+), 33 deletions(-)
Title: Functions for Optimal Non-Bipartite Matching
Description: Perform non-bipartite matching and matched randomization. A
"bipartite" matching utilizes two separate groups, e.g. smokers being
matched to nonsmokers or cases being matched to controls. A "non-bipartite"
matching creates mates from one big group, e.g. 100 hospitals being
randomized for a two-arm cluster randomized trial or 5000 children who
have been exposed to various levels of secondhand smoke and are being
paired to form a greater exposure vs. lesser exposure comparison. At the
core of a non-bipartite matching is a N x N distance matrix for N potential
mates. The distance between two units expresses a measure of similarity or
quality as mates (the lower the better). The 'gendistance()' and
'distancematrix()' functions assist in creating this. The 'nonbimatch()'
function creates the matching that minimizes the total sum of distances
between mates; hence, it is referred to as an "optimal" matching. The
'assign.grp()' function aids in performing a matched randomization. Note
bipartite matching can be performed using the prevent option in
'gendistance()'.
Author: Cole Beck [aut, cre], Bo Lu [aut], Robert Greevy [aut]
Maintainer: Cole Beck <cole.beck@vanderbilt.edu>
Diff between nbpMatching versions 1.4.4 dated 2015-01-20 and 1.4.5 dated 2015-05-14
DESCRIPTION | 47 ++++++++++++++++------------------- MD5 | 36 +++++++++++++------------- NAMESPACE | 2 - R/nonbimatch.R | 2 + man/assign.grp.Rd | 3 +- man/distancematrix.Rd | 3 +- man/fill.missing.Rd | 3 +- man/gendistance.Rd | 3 +- man/get.sets.Rd | 3 +- man/make.phantoms.Rd | 3 +- man/nbpMatching-internal.Rd | 3 +- man/nbpMatching-package.Rd | 3 +- man/nonbimatch.Rd | 3 +- man/qom.Rd | 3 +- man/quantile.Rd | 3 +- man/scalar.dist.Rd | 3 +- tests/testthat/test-distancematrix.R | 1 tests/testthat/test-gendistance.R | 10 +++++++ tests/testthat/test-nonbimatch.R | 1 19 files changed, 79 insertions(+), 56 deletions(-)
Title: Statistical Methods for Anthropometric Data
Description: Statistical methodologies especially developed to analyze anthropometric data. These methods are aimed at providing effective solutions to some commons problems related to Ergonomics and Anthropometry. They are based on clustering, the statistical concept of data depth, statistical shape analysis and archetypal analysis.
Author: Guillermo Vinue, Irene Epifanio, Amelia Simo, M. Victoria Ibanez, Juan Domingo, Guillermo Ayala
Maintainer: Guillermo Vinue <Guillermo.Vinue@uv.es>
Diff between Anthropometry versions 1.1 dated 2014-10-13 and 1.2 dated 2015-05-14
Anthropometry-1.1/Anthropometry/R/Anthropometry-internalDepth.R |only Anthropometry-1.1/Anthropometry/R/Anthropometry-internalHIPAM.R |only Anthropometry-1.1/Anthropometry/R/GetDistMatrix.R |only Anthropometry-1.1/Anthropometry/R/WeightsMixtureUB.R |only Anthropometry-1.1/Anthropometry/R/accommodation.R |only Anthropometry-1.1/Anthropometry/R/cdfDiss.R |only Anthropometry-1.1/Anthropometry/R/compPerc.R |only Anthropometry-1.1/Anthropometry/R/hipamBigGroups.R |only Anthropometry-1.1/Anthropometry/R/indivNearest.R |only Anthropometry-1.1/Anthropometry/R/optraProcrustes.R |only Anthropometry-1.1/Anthropometry/R/outlierHipam.R |only Anthropometry-1.1/Anthropometry/R/overlappingRows.R |only Anthropometry-1.1/Anthropometry/R/plotMedoids.R |only Anthropometry-1.1/Anthropometry/R/plotTreeHipam.R |only Anthropometry-1.1/Anthropometry/R/qtranProcrustes.R |only Anthropometry-1.1/Anthropometry/R/screeArchetyp.R |only Anthropometry-1.1/Anthropometry/R/shapes3dMod.R |only Anthropometry-1.1/Anthropometry/R/skeletonsArchet.R |only Anthropometry-1.1/Anthropometry/R/xyplotPCA.R |only Anthropometry-1.1/Anthropometry/data/cMDSwomen.RData |only Anthropometry-1.1/Anthropometry/data/cube34.RData |only Anthropometry-1.1/Anthropometry/data/cube8.RData |only Anthropometry-1.1/Anthropometry/data/dataDemo.RData |only Anthropometry-1.1/Anthropometry/data/dataUSAF.RData |only Anthropometry-1.1/Anthropometry/data/landmarks.RData |only Anthropometry-1.1/Anthropometry/data/parallelepiped34.RData |only Anthropometry-1.1/Anthropometry/data/parallelepiped8.RData |only Anthropometry-1.1/Anthropometry/man/Anthropometry-internalDepth.Rd |only Anthropometry-1.1/Anthropometry/man/Anthropometry-internalHIPAM.Rd |only Anthropometry-1.1/Anthropometry/man/GetDistMatrix.Rd |only Anthropometry-1.1/Anthropometry/man/WeightsMixtureUB.Rd |only Anthropometry-1.1/Anthropometry/man/accommodation.Rd |only Anthropometry-1.1/Anthropometry/man/cMDSwomen.Rd |only Anthropometry-1.1/Anthropometry/man/cdfDiss.Rd |only Anthropometry-1.1/Anthropometry/man/compPerc.Rd |only Anthropometry-1.1/Anthropometry/man/cube34.Rd |only Anthropometry-1.1/Anthropometry/man/cube8.Rd |only Anthropometry-1.1/Anthropometry/man/dataDemo.Rd |only Anthropometry-1.1/Anthropometry/man/dataUSAF.Rd |only Anthropometry-1.1/Anthropometry/man/hipamBigGroups.Rd |only Anthropometry-1.1/Anthropometry/man/indivNearest.Rd |only Anthropometry-1.1/Anthropometry/man/landmarks.Rd |only Anthropometry-1.1/Anthropometry/man/optraProcrustes.Rd |only Anthropometry-1.1/Anthropometry/man/outlierHipam.Rd |only Anthropometry-1.1/Anthropometry/man/overlappingRows.Rd |only Anthropometry-1.1/Anthropometry/man/parallelepiped34.Rd |only Anthropometry-1.1/Anthropometry/man/parallelepiped8.Rd |only Anthropometry-1.1/Anthropometry/man/plotMedoids.Rd |only Anthropometry-1.1/Anthropometry/man/plotTreeHipam.Rd |only Anthropometry-1.1/Anthropometry/man/qtranProcrustes.Rd |only Anthropometry-1.1/Anthropometry/man/screeArchetyp.Rd |only Anthropometry-1.1/Anthropometry/man/shapes3dMod.Rd |only Anthropometry-1.1/Anthropometry/man/skeletonsArchet.Rd |only Anthropometry-1.1/Anthropometry/man/xyplotPCA.Rd |only Anthropometry-1.1/Anthropometry/vignettes/decisionTree_Rpackage.pdf |only Anthropometry-1.1/Anthropometry/vignettes/decisionTree_Rpackage_1.pdf |only Anthropometry-1.2/Anthropometry/DESCRIPTION | 10 Anthropometry-1.2/Anthropometry/MD5 | 225 +- Anthropometry-1.2/Anthropometry/NAMESPACE | 38 Anthropometry-1.2/Anthropometry/NEWS | 8 Anthropometry-1.2/Anthropometry/R/Anthropometry-internalArchetypoids.R | 24 Anthropometry-1.2/Anthropometry/R/Anthropometry-internalHipamAnthropom.R |only Anthropometry-1.2/Anthropometry/R/Anthropometry-internalTDDclust.R |only Anthropometry-1.2/Anthropometry/R/CCbiclustAnthropo.R | 35 Anthropometry-1.2/Anthropometry/R/HartiganShapes.R | 90 Anthropometry-1.2/Anthropometry/R/LloydShapes.R | 62 Anthropometry-1.2/Anthropometry/R/TDDclust.R | 148 - Anthropometry-1.2/Anthropometry/R/anthrCases.R |only Anthropometry-1.2/Anthropometry/R/archetypesBoundary.R | 9 Anthropometry-1.2/Anthropometry/R/archetypoids.R | 26 Anthropometry-1.2/Anthropometry/R/array3Dlandm.R |only Anthropometry-1.2/Anthropometry/R/bustSizesStandard.R |only Anthropometry-1.2/Anthropometry/R/cdfDissWomenPrototypes.R |only Anthropometry-1.2/Anthropometry/R/checkBranchLocalIMO.R | 19 Anthropometry-1.2/Anthropometry/R/checkBranchLocalMO.R | 13 Anthropometry-1.2/Anthropometry/R/figures8landm.R | 53 Anthropometry-1.2/Anthropometry/R/getBestPamsamIMO.R | 27 Anthropometry-1.2/Anthropometry/R/getBestPamsamMO.R | 25 Anthropometry-1.2/Anthropometry/R/getDistMatrix.R |only Anthropometry-1.2/Anthropometry/R/hipamAnthropom.R | 9 Anthropometry-1.2/Anthropometry/R/matPercs.R |only Anthropometry-1.2/Anthropometry/R/nearestToArchetypes.R |only Anthropometry-1.2/Anthropometry/R/optraShapes.R |only Anthropometry-1.2/Anthropometry/R/overlapBiclustersByRows.R |only Anthropometry-1.2/Anthropometry/R/percentilsArchetypoid.R |only Anthropometry-1.2/Anthropometry/R/plotPrototypes.R |only Anthropometry-1.2/Anthropometry/R/plotTreeHipamAnthropom.R |only Anthropometry-1.2/Anthropometry/R/plotTrimmOutl.R | 36 Anthropometry-1.2/Anthropometry/R/preprocessing.R |only Anthropometry-1.2/Anthropometry/R/projShapes.R |only Anthropometry-1.2/Anthropometry/R/qtranShapes.R |only Anthropometry-1.2/Anthropometry/R/screeArchetypal.R |only Anthropometry-1.2/Anthropometry/R/shapes3dShapes.R |only Anthropometry-1.2/Anthropometry/R/skeletonsArchetypal.R |only Anthropometry-1.2/Anthropometry/R/stepArchetypesMod.R | 11 Anthropometry-1.2/Anthropometry/R/stepArchetypoids.R | 23 Anthropometry-1.2/Anthropometry/R/trimmOutl.R |only Anthropometry-1.2/Anthropometry/R/trimmedLloydShapes.R | 61 Anthropometry-1.2/Anthropometry/R/trimmedoid.R | 52 Anthropometry-1.2/Anthropometry/R/trimowa.R | 22 Anthropometry-1.2/Anthropometry/R/weightsMixtureUB.R |only Anthropometry-1.2/Anthropometry/R/xyplotPCArchetypes.R |only Anthropometry-1.2/Anthropometry/build/vignette.rds |binary Anthropometry-1.2/Anthropometry/data/USAFSurvey.RData |only Anthropometry-1.2/Anthropometry/data/cube34landm.RData |only Anthropometry-1.2/Anthropometry/data/cube8landm.RData |only Anthropometry-1.2/Anthropometry/data/descrDissTrunks.RData |only Anthropometry-1.2/Anthropometry/data/landmarksSampleSpaSurv.RData |only Anthropometry-1.2/Anthropometry/data/parallelep34landm.RData |only Anthropometry-1.2/Anthropometry/data/parallelep8landm.RData |only Anthropometry-1.2/Anthropometry/data/sampleSpanishSurvey.RData |only Anthropometry-1.2/Anthropometry/inst/doc/Anthropometry.R | 409 +-- Anthropometry-1.2/Anthropometry/inst/doc/Anthropometry.Rnw | 1044 +++++----- Anthropometry-1.2/Anthropometry/inst/doc/Anthropometry.pdf |binary Anthropometry-1.2/Anthropometry/man/Anthropometry-internalArchetypoids.Rd | 2 Anthropometry-1.2/Anthropometry/man/Anthropometry-internalHipamAnthropom.Rd |only Anthropometry-1.2/Anthropometry/man/Anthropometry-internalPlotTree.Rd | 7 Anthropometry-1.2/Anthropometry/man/Anthropometry-internalTDDclust.Rd |only Anthropometry-1.2/Anthropometry/man/Anthropometry-package.Rd | 64 Anthropometry-1.2/Anthropometry/man/CCbiclustAnthropo.Rd | 15 Anthropometry-1.2/Anthropometry/man/HartiganShapes.Rd | 98 Anthropometry-1.2/Anthropometry/man/LloydShapes.Rd | 92 Anthropometry-1.2/Anthropometry/man/TDDclust.Rd | 47 Anthropometry-1.2/Anthropometry/man/USAFSurvey.Rd |only Anthropometry-1.2/Anthropometry/man/anthrCases.Rd |only Anthropometry-1.2/Anthropometry/man/archetypesBoundary.Rd | 52 Anthropometry-1.2/Anthropometry/man/archetypoids.Rd | 89 Anthropometry-1.2/Anthropometry/man/array3Dlandm.Rd |only Anthropometry-1.2/Anthropometry/man/bustSizesStandard.Rd |only Anthropometry-1.2/Anthropometry/man/cdfDissWomenPrototypes.Rd |only Anthropometry-1.2/Anthropometry/man/checkBranchLocalIMO.Rd | 12 Anthropometry-1.2/Anthropometry/man/checkBranchLocalMO.Rd | 15 Anthropometry-1.2/Anthropometry/man/cube34landm.Rd |only Anthropometry-1.2/Anthropometry/man/cube8landm.Rd |only Anthropometry-1.2/Anthropometry/man/descrDissTrunks.Rd |only Anthropometry-1.2/Anthropometry/man/figures8landm.Rd | 12 Anthropometry-1.2/Anthropometry/man/getBestPamsamIMO.Rd | 15 Anthropometry-1.2/Anthropometry/man/getBestPamsamMO.Rd | 15 Anthropometry-1.2/Anthropometry/man/getDistMatrix.Rd |only Anthropometry-1.2/Anthropometry/man/hipamAnthropom.Rd | 83 Anthropometry-1.2/Anthropometry/man/landmarksSampleSpaSurv.Rd |only Anthropometry-1.2/Anthropometry/man/matPercs.Rd |only Anthropometry-1.2/Anthropometry/man/nearestToArchetypes.Rd |only Anthropometry-1.2/Anthropometry/man/optraShapes.Rd |only Anthropometry-1.2/Anthropometry/man/overlapBiclustersByRows.Rd |only Anthropometry-1.2/Anthropometry/man/parallelep34landm.Rd |only Anthropometry-1.2/Anthropometry/man/parallelep8landm.Rd |only Anthropometry-1.2/Anthropometry/man/percentilsArchetypoid.Rd |only Anthropometry-1.2/Anthropometry/man/plotPrototypes.Rd |only Anthropometry-1.2/Anthropometry/man/plotTreeHipamAnthropom.Rd |only Anthropometry-1.2/Anthropometry/man/plotTrimmOutl.Rd | 124 - Anthropometry-1.2/Anthropometry/man/preprocessing.Rd |only Anthropometry-1.2/Anthropometry/man/projShapes.Rd |only Anthropometry-1.2/Anthropometry/man/qtranShapes.Rd |only Anthropometry-1.2/Anthropometry/man/sampleSpanishSurvey.Rd |only Anthropometry-1.2/Anthropometry/man/screeArchetypal.Rd |only Anthropometry-1.2/Anthropometry/man/shapes3dShapes.Rd |only Anthropometry-1.2/Anthropometry/man/skeletonsArchetypal.Rd |only Anthropometry-1.2/Anthropometry/man/stepArchetypesMod.Rd | 28 Anthropometry-1.2/Anthropometry/man/stepArchetypoids.Rd | 52 Anthropometry-1.2/Anthropometry/man/trimmOutl.Rd |only Anthropometry-1.2/Anthropometry/man/trimmedLloydShapes.Rd | 58 Anthropometry-1.2/Anthropometry/man/trimmedoid.Rd | 49 Anthropometry-1.2/Anthropometry/man/trimowa.Rd | 52 Anthropometry-1.2/Anthropometry/man/weightsMixtureUB.Rd |only Anthropometry-1.2/Anthropometry/man/xyplotPCArchetypes.Rd |only Anthropometry-1.2/Anthropometry/src/cast.c | 6 Anthropometry-1.2/Anthropometry/vignettes/Anthropometry.Rnw | 1044 +++++----- Anthropometry-1.2/Anthropometry/vignettes/Anthropometry.bib | 121 - Anthropometry-1.2/Anthropometry/vignettes/algorithm2e.sty |only Anthropometry-1.2/Anthropometry/vignettes/algorithmic.sty |only Anthropometry-1.2/Anthropometry/vignettes/decisionTree.png |only Anthropometry-1.2/Anthropometry/vignettes/decisionTree_1.png |only Anthropometry-1.2/Anthropometry/vignettes/prendas_1.png |only Anthropometry-1.2/Anthropometry/vignettes/prendas_2.png |only Anthropometry-1.2/Anthropometry/vignettes/prendas_3.png |only 176 files changed, 2388 insertions(+), 2243 deletions(-)
Title: The YUIMA Project Package for SDEs
Description: Simulation and Inference for Stochastic Differential Equations.
Author: YUIMA Project Team
Maintainer: Stefano M. Iacus <stefano.iacus@unimi.it>
Diff between yuima versions 1.0.69 dated 2015-05-11 and 1.0.71 dated 2015-05-14
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS | 9 +++++---- man/MWK151.Rd | 2 +- src/cce_functions.c | 10 +++++++--- 5 files changed, 20 insertions(+), 15 deletions(-)
Title: Generalized Elastic Nets
Description: Implements several extensions of the elastic net regularization scheme. These extensions include individual feature penalties for the L1 term, feature-feature penalties for the L2 term, as well as translation coefficients for the latter.
Author: Artem Sokolov
Maintainer: Artem Sokolov <artem.sokolov@gmail.com>
Diff between gelnet versions 1.0 dated 2015-02-03 and 1.1 dated 2015-05-14
CHANGES |only DESCRIPTION | 11 +-- MD5 | 25 ++++--- NAMESPACE | 1 R/gelnet.R | 157 +++++++++++++++++++++++++++++++++++++++++------ man/adj2lapl.Rd | 2 man/adj2nlapl.Rd | 2 man/gelnet.L1bin.Rd | 2 man/gelnet.klr.Rd |only man/gelnet.krr.Rd |only man/gelnet.lin.Rd | 6 + man/gelnet.lin.obj.Rd | 6 + man/gelnet.logreg.Rd | 9 +- man/gelnet.logreg.obj.Rd | 6 + src/gelnet.c | 71 +++++++++------------ 15 files changed, 214 insertions(+), 84 deletions(-)
Title: Scrapes Data from www.fitbit.com
Description: Scrapes data from www.fitbit.com. This does not use the official API,
but instead uses the API that the web dashboard uses to generate the graphs
displayed on the dashboard after login at www.fitbit.com.
Author: Cory Nissen <corynissen@gmail.com> [aut, cre]
Maintainer: Cory Nissen <corynissen@gmail.com>
Diff between fitbitScraper versions 0.1.2 dated 2015-03-25 and 0.1.3 dated 2015-05-14
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/get_daily_data.R | 2 +- R/get_intraday_data.R | 2 +- R/get_premium_export.R | 4 ++++ R/get_sleep_data.R | 2 +- README.md | 4 ++-- 7 files changed, 20 insertions(+), 16 deletions(-)