Title: Using V-algorithm and Newton-Raphson Method to Obtain
Multiple-objective Optimal Design
Diff between VNM versions 1.0 dated 2014-05-16 and 2.0 dated 2014-10-31
Description: Using V-algorithm and Newton-Raphson method to obtain multiple-objective optimal design for estimating the shape of dose-response, the ED50 (the dose producing an effect mid-way between the expected responses at the extreme doses) and the MED (the minimum effective dose level) for the 4-parameter logistic model and for evaluating its efficiencies for the three objectives.
Author: Seung Won Hyun, Weng Kee Wong, and Yarong Yang
Maintainer: Yarong Yang
DESCRIPTION | 13 -
MD5 | 24 +--
R/Deff.R | 204 ++++++++++++--------------
R/MOPT.R | 57 ++++---
R/S.Weight.R | 247 +++++++++++++++-----------------
R/ceff1.R | 294 +++++++++++++++++++-------------------
R/ceff2.R | 405 ++++++++++++++++++++++++++---------------------------
man/Deff.Rd | 27 +--
man/MOPT.Rd | 32 +---
man/S.Weight.Rd | 28 +--
man/VNM-package.Rd | 29 +--
man/ceff1.Rd | 23 +--
man/ceff2.Rd | 27 +--
13 files changed, 689 insertions(+), 721 deletions(-)
Title: vcd extensions and additions
Diff between vcdExtra versions 0.6-1 dated 2014-06-10 and 0.6-3 dated 2014-10-31
Description: Provides additional data sets, methods and documentation to complement the vcd package for Visualizing Categorical Data
and the gnm package for Generalized Nonlinear Models.
In particular, vcdExtra extends mosaic, assoc and sieve plots from vcd to handle glm() and gnm() models and
adds a 3D version in mosaic3d. Additionally, methods are provided for comparing and visualizing lists of
glm and loglm objects.
Author: Michael Friendly [aut, cre], Heather Turner [ctb], Achim Zeileis [ctb], Duncan Murdoch [ctb], David Firth [ctb]
Maintainer: Michael Friendly
vcdExtra-0.6-1/vcdExtra/R/summarise.R |only
vcdExtra-0.6-1/vcdExtra/man/summarise.Rd |only
vcdExtra-0.6-1/vcdExtra/vignettes/fig |only
vcdExtra-0.6-3/vcdExtra/DESCRIPTION | 20 +--
vcdExtra-0.6-3/vcdExtra/MD5 | 133 +++++++++------------
vcdExtra-0.6-3/vcdExtra/NAMESPACE | 33 +++--
vcdExtra-0.6-3/vcdExtra/NEWS | 18 ++
vcdExtra-0.6-3/vcdExtra/R/Summarise.R |only
vcdExtra-0.6-3/vcdExtra/R/cutfac.R |only
vcdExtra-0.6-3/vcdExtra/R/glmlist.R | 21 +++
vcdExtra-0.6-3/vcdExtra/R/loddsratio.R | 5
vcdExtra-0.6-3/vcdExtra/R/logLik.loglm.R | 19 +--
vcdExtra-0.6-3/vcdExtra/R/mosaic3d.R | 10 -
vcdExtra-0.6-3/vcdExtra/R/split3d.R | 2
vcdExtra-0.6-3/vcdExtra/R/summarise-old.R |only
vcdExtra-0.6-3/vcdExtra/build |only
vcdExtra-0.6-3/vcdExtra/data/Abortion.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Accident.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Alligator.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Bartlett.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Caesar.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Cancer.rda |binary
vcdExtra-0.6-3/vcdExtra/data/DaytonSurvey.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Detergent.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Donner.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Draft1970.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Draft1970table.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Dyke.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Fungicide.rda |binary
vcdExtra-0.6-3/vcdExtra/data/GSS.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Gilby.rda |binary
vcdExtra-0.6-3/vcdExtra/data/HairEyePlace.RData |only
vcdExtra-0.6-3/vcdExtra/data/Hauser79.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Heart.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Heckman.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Hoyt.rda |binary
vcdExtra-0.6-3/vcdExtra/data/ICU.RData |binary
vcdExtra-0.6-3/vcdExtra/data/JobSat.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Mammograms.RData |binary
vcdExtra-0.6-3/vcdExtra/data/Mental.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Mobility.rda |binary
vcdExtra-0.6-3/vcdExtra/data/PhdPubs.RData |only
vcdExtra-0.6-3/vcdExtra/data/TV.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Titanicp.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Vietnam.rda |binary
vcdExtra-0.6-3/vcdExtra/data/Yamaguchi87.RData |binary
vcdExtra-0.6-3/vcdExtra/inst/doc/vcd-tutorial.R | 2
vcdExtra-0.6-3/vcdExtra/inst/doc/vcd-tutorial.Rnw | 6
vcdExtra-0.6-3/vcdExtra/man/Accident.Rd | 8 -
vcdExtra-0.6-3/vcdExtra/man/Crossings.Rd | 4
vcdExtra-0.6-3/vcdExtra/man/Donner.Rd | 2
vcdExtra-0.6-3/vcdExtra/man/HairEyePlace.Rd |only
vcdExtra-0.6-3/vcdExtra/man/Hauser79.Rd | 16 +-
vcdExtra-0.6-3/vcdExtra/man/Kway.Rd | 10 -
vcdExtra-0.6-3/vcdExtra/man/PhdPubs.Rd |only
vcdExtra-0.6-3/vcdExtra/man/Summarise.Rd |only
vcdExtra-0.6-3/vcdExtra/man/cutfac.Rd |only
vcdExtra-0.6-3/vcdExtra/man/glmlist.Rd | 27 +++-
vcdExtra-0.6-3/vcdExtra/man/loddsratio.Rd | 4
vcdExtra-0.6-3/vcdExtra/man/logLik.loglm.Rd | 9 -
vcdExtra-0.6-3/vcdExtra/man/modFit.Rd | 2
vcdExtra-0.6-3/vcdExtra/man/mosaic3d.Rd | 2
vcdExtra-0.6-3/vcdExtra/man/summarise-old.Rd |only
vcdExtra-0.6-3/vcdExtra/man/vcdExtra-package.Rd | 6
vcdExtra-0.6-3/vcdExtra/vignettes/vcd-tutorial.Rnw | 6
65 files changed, 215 insertions(+), 150 deletions(-)
Title: Conversion of R regression output to LaTeX or HTML tables.
Diff between texreg versions 1.33 dated 2014-07-21 and 1.34 dated 2014-10-31
Description: texreg converts coefficients, standard errors, significance stars, and goodness-of-fit statistics of statistical models into LaTeX tables or HTML tables/MS Word documents or to nicely formatted screen output for the R console for easy model comparison. A list of several models can be combined in a single table. The output is highly customizable. New model types can be easily implemented.
Author: Philip Leifeld
Maintainer: Philip Leifeld
texreg-1.33/texreg/man/extract-methods.Rd |only
texreg-1.34/texreg/DESCRIPTION | 17
texreg-1.34/texreg/MD5 | 25 -
texreg-1.34/texreg/NAMESPACE | 2
texreg-1.34/texreg/R/extract.R | 150 +++++-
texreg-1.34/texreg/R/internal.R | 6
texreg-1.34/texreg/R/texreg.R | 330 ++++++++++-----
texreg-1.34/texreg/inst/CITATION | 2
texreg-1.34/texreg/inst/doc/v55i08.R | 46 +-
texreg-1.34/texreg/inst/doc/v55i08.Rnw | 18
texreg-1.34/texreg/inst/doc/v55i08.pdf |binary
texreg-1.34/texreg/man/extract.Rd | 657 ++++++++++++++++++++++--------
texreg-1.34/texreg/man/texreg.Rd | 10
texreg-1.34/texreg/vignettes/v55i08.Rnw | 18
14 files changed, 923 insertions(+), 358 deletions(-)
Title: Tools Inspired by Stata to Clean, Explore and Join Datasets
Diff between statar versions 0.1.1 dated 2014-10-26 and 0.1.2 dated 2014-10-31
Description: statar makes it easier to work with tabular datasets. The package
includes a set of functions to clean and summarize variables, to join
datasets using an SQL-syntax, to manipulate datasets with a panel structure
(elapsed dates, lead/lag, rolling functions, fill in missing values based
on previous dates, add rows for missing dates). The package also includes
functions to emulate Stata and Julia string and expression interpolation.
statar is based on the data.table package and is inspired by Stata.
Author: Matthieu Gomez [aut, cre]
Maintainer: Matthieu Gomez
statar-0.1.1/statar/inst/doc/main.Rmd |only
statar-0.1.1/statar/inst/doc/main.html |only
statar-0.1.1/statar/vignettes/main.Rmd |only
statar-0.1.2/statar/DESCRIPTION | 19 +
statar-0.1.2/statar/MD5 | 60 +++---
statar-0.1.2/statar/NAMESPACE | 44 +++-
statar-0.1.2/statar/R/duplicates.R | 33 ++-
statar-0.1.2/statar/R/elapsed_dates.R | 257 +++++++++------------------
statar-0.1.2/statar/R/fill_gap.R | 8
statar-0.1.2/statar/R/graph.R | 1
statar-0.1.2/statar/R/join.R | 121 ++++++------
statar-0.1.2/statar/R/lead-lag.R | 86 ++++-----
statar-0.1.2/statar/R/pastem.R |only
statar-0.1.2/statar/R/roll.R |only
statar-0.1.2/statar/R/setkeep.R | 33 +++
statar-0.1.2/statar/R/statar.R | 4
statar-0.1.2/statar/R/tempname.R | 2
statar-0.1.2/statar/R/utils.R | 80 +-------
statar-0.1.2/statar/README.md | 5
statar-0.1.2/statar/build/vignette.rds |binary
statar-0.1.2/statar/inst/doc/macros.Rmd |only
statar-0.1.2/statar/inst/doc/macros.html |only
statar-0.1.2/statar/inst/doc/panel-data.Rmd |only
statar-0.1.2/statar/inst/doc/panel-data.html |only
statar-0.1.2/statar/inst/doc/summary.Rmd |only
statar-0.1.2/statar/inst/doc/summary.html |only
statar-0.1.2/statar/man/elapsed.Rd | 20 --
statar-0.1.2/statar/man/fill_gap.Rd | 16 -
statar-0.1.2/statar/man/join.Rd | 28 +-
statar-0.1.2/statar/man/lead-lag.Rd | 26 +-
statar-0.1.2/statar/man/pastem.Rd |only
statar-0.1.2/statar/man/roll.Rd |only
statar-0.1.2/statar/man/setdrop.Rd |only
statar-0.1.2/statar/man/tempname.Rd | 2
statar-0.1.2/statar/tests |only
statar-0.1.2/statar/vignettes/macros.Rmd |only
statar-0.1.2/statar/vignettes/panel-data.Rmd |only
statar-0.1.2/statar/vignettes/summary.Rmd |only
38 files changed, 404 insertions(+), 441 deletions(-)
Title: Crossover Designs
Diff between Crossover versions 0.1-12 dated 2014-09-25 and 0.1-13 dated 2014-10-31
Description: Package Crossover provides different crossover designs from combinatorial or search algorithms as well as from literature and a GUI to access them.
Author: Kornelius Rohmeyer
Maintainer: Kornelius Rohmeyer
Crossover-0.1-12/Crossover/data/clatworthyC.rda |only
Crossover-0.1-13/Crossover/DESCRIPTION | 6
Crossover-0.1-13/Crossover/MD5 | 80 -
Crossover-0.1-13/Crossover/NEWS | 21
Crossover-0.1-13/Crossover/R/buildSummary.R | 44
Crossover-0.1-13/Crossover/R/crossoverS4.R | 15
Crossover-0.1-13/Crossover/R/efficiency.R | 245 +--
Crossover-0.1-13/Crossover/R/estimable.R | 6
Crossover-0.1-13/Crossover/R/functionsTestsAndExploring.R | 20
Crossover-0.1-13/Crossover/R/general.carryover.R | 620 +---------
Crossover-0.1-13/Crossover/R/misc.R | 103 +
Crossover-0.1-13/Crossover/R/model.R | 6
Crossover-0.1-13/Crossover/R/randomDesign.R |only
Crossover-0.1-13/Crossover/R/search.R | 41
Crossover-0.1-13/Crossover/R/startGUIs.R | 8
Crossover-0.1-13/Crossover/data/pbib2combine.rda |only
Crossover-0.1-13/Crossover/inst/doc/Crossover.R | 176 ++
Crossover-0.1-13/Crossover/inst/doc/Crossover.Rnw | 488 +++----
Crossover-0.1-13/Crossover/inst/doc/Crossover.pdf |binary
Crossover-0.1-13/Crossover/inst/java/crossover.jar |binary
Crossover-0.1-13/Crossover/inst/unitTests/runit.efficiency.R |only
Crossover-0.1-13/Crossover/inst/unitTests/runit.general.carryover.R |only
Crossover-0.1-13/Crossover/inst/unitTests/runit.misc.R | 6
Crossover-0.1-13/Crossover/java/org/mutoss/gui/AlgorithmPanel.java | 35
Crossover-0.1-13/Crossover/java/org/mutoss/gui/CrossoverGUI.java | 51
Crossover-0.1-13/Crossover/java/org/mutoss/gui/Design.java | 34
Crossover-0.1-13/Crossover/java/org/mutoss/gui/DesignSelectionPanel.java | 6
Crossover-0.1-13/Crossover/java/org/mutoss/gui/DesignTable.java | 39
Crossover-0.1-13/Crossover/java/org/mutoss/gui/DesignTableModel.java | 28
Crossover-0.1-13/Crossover/java/org/mutoss/gui/HTMLOutputPane.java | 28
Crossover-0.1-13/Crossover/man/Crossoverdesigns.Rd | 164 ++
Crossover-0.1-13/Crossover/man/buildSummaryTable.Rd | 8
Crossover-0.1-13/Crossover/man/design.efficiency.Rd | 40
Crossover-0.1-13/Crossover/man/general.carryover.Rd | 28
Crossover-0.1-13/Crossover/man/getDesign-methods.Rd | 4
Crossover-0.1-13/Crossover/man/searchCrossOverDesign.Rd | 4
Crossover-0.1-13/Crossover/src/searchCOD.cpp | 33
Crossover-0.1-13/Crossover/src/searchCOD.h | 4
Crossover-0.1-13/Crossover/vignettes/Crossover.Rnw | 488 +++----
Crossover-0.1-13/Crossover/vignettes/childs |only
Crossover-0.1-13/Crossover/vignettes/figures/Algorithm.png |binary
Crossover-0.1-13/Crossover/vignettes/figures/GUI.png |binary
Crossover-0.1-13/Crossover/vignettes/literatur.bib | 7
43 files changed, 1381 insertions(+), 1505 deletions(-)
Title: Biological Sequences Retrieval and Analysis
Diff between seqinr versions 3.0-7 dated 2012-12-13 and 3.0-9 dated 2014-10-31
Description: Exploratory data analysis and data visualization for
biological sequence (DNA and protein) data. Include also
utilities for sequence data management under the ACNUC system.
Author: Delphine Charif and Jean R. Lobry and Anamaria Necsulea and
Leonor Palmeira and Simon Penel and Guy Perriere
Maintainer: Simon Penel
seqinr-3.0-7/seqinr/data/SEQINR.UTIL.RData |only
seqinr-3.0-9/seqinr/DESCRIPTION | 15 +--
seqinr-3.0-9/seqinr/MD5 | 90 +++++++++++-----------
seqinr-3.0-9/seqinr/NAMESPACE | 1
seqinr-3.0-9/seqinr/R/AAstat.R | 1
seqinr-3.0-9/seqinr/R/autosocket.R | 6 -
seqinr-3.0-9/seqinr/R/choosebank.R | 3
seqinr-3.0-9/seqinr/R/consensus.R | 1
seqinr-3.0-9/seqinr/R/extract.breakpoints.R | 4
seqinr-3.0-9/seqinr/R/gb2fasta.R | 4
seqinr-3.0-9/seqinr/R/modifylist.R | 2
seqinr-3.0-9/seqinr/R/oriloc.R | 1
seqinr-3.0-9/seqinr/R/plotabif.R | 2
seqinr-3.0-9/seqinr/R/plotladder.R | 2
seqinr-3.0-9/seqinr/R/query.r | 2
seqinr-3.0-9/seqinr/data/sysdata.rda |only
seqinr-3.0-9/seqinr/man/AAstat.Rd | 3
seqinr-3.0-9/seqinr/man/GC.Rd | 4
seqinr-3.0-9/seqinr/man/SEQINR.UTIL.Rd | 1
seqinr-3.0-9/seqinr/man/acnucopen.Rd | 4
seqinr-3.0-9/seqinr/man/as.matrix.alignment.Rd | 3
seqinr-3.0-9/seqinr/man/col2alpha.Rd | 3
seqinr-3.0-9/seqinr/man/computePI.Rd | 3
seqinr-3.0-9/seqinr/man/count.Rd | 16 ++-
seqinr-3.0-9/seqinr/man/crelistfromclientdata.Rd | 7 +
seqinr-3.0-9/seqinr/man/dinucl.Rd | 4
seqinr-3.0-9/seqinr/man/dotPlot.Rd | 3
seqinr-3.0-9/seqinr/man/draw.rearranged.oriloc.Rd | 12 +-
seqinr-3.0-9/seqinr/man/extract.breakpoints.Rd | 13 ++-
seqinr-3.0-9/seqinr/man/extractseqs.Rd | 9 +-
seqinr-3.0-9/seqinr/man/gb2fasta.Rd | 4
seqinr-3.0-9/seqinr/man/get.db.growth.Rd | 3
seqinr-3.0-9/seqinr/man/getTrans.Rd | 9 +-
seqinr-3.0-9/seqinr/man/ghelp.Rd | 3
seqinr-3.0-9/seqinr/man/kaks.Rd | 9 +-
seqinr-3.0-9/seqinr/man/m16j.Rd | 3
seqinr-3.0-9/seqinr/man/modifylist.Rd | 4
seqinr-3.0-9/seqinr/man/permutation.Rd | 3
seqinr-3.0-9/seqinr/man/query.Rd | 3
seqinr-3.0-9/seqinr/man/read.abif.Rd | 3
seqinr-3.0-9/seqinr/man/read.alignment.Rd | 15 ++-
seqinr-3.0-9/seqinr/man/rearranged.oriloc.Rd | 15 ++-
seqinr-3.0-9/seqinr/man/savelist.Rd | 4
seqinr-3.0-9/seqinr/man/stutterabif.Rd | 22 +++--
seqinr-3.0-9/seqinr/man/trimSpace.Rd | 15 ++-
seqinr-3.0-9/seqinr/man/words.Rd | 10 +-
seqinr-3.0-9/seqinr/man/zscore.Rd | 2
47 files changed, 211 insertions(+), 135 deletions(-)
Title: SNP-set (Sequence) Kernel Association Test
Diff between SKAT versions 0.95 dated 2014-02-18 and 1.0 dated 2014-10-31
Description: SKAT is a kernel regression based association test between a set of single nucleotide polymorphism (SNP) and dichotomous or quantitative phenotypes. SKAT aggregates individual score test statistics of SNPs in a SNP set and efficiently computes SNP-set level p-values, while adjusting for covariates, such as principal components to account for population stratification.
Author: Seunggeun (Shawn) Lee, with contributions from Larisa Miropolsky and Michael Wu
Maintainer: Seunggeun (Shawn) Lee
SKAT-0.95/SKAT/src/resampling.c |only
SKAT-1.0/SKAT/DESCRIPTION | 13 -
SKAT-1.0/SKAT/MD5 | 99 +++++++----
SKAT-1.0/SKAT/NAMESPACE | 5
SKAT-1.0/SKAT/R/Binary_Etc.R |only
SKAT-1.0/SKAT/R/Binary_Function.R |only
SKAT-1.0/SKAT/R/Binary_Function1.R |only
SKAT-1.0/SKAT/R/Binary_MAIN.R |only
SKAT-1.0/SKAT/R/Binary_MAIN_ExactBin.R |only
SKAT-1.0/SKAT/R/Binary_Result_Calibration.R |only
SKAT-1.0/SKAT/R/Binary_single.b.firth.R |only
SKAT-1.0/SKAT/R/Function_Power_Resampling.R | 2
SKAT-1.0/SKAT/R/MK_SSD_All_Output.R |only
SKAT-1.0/SKAT/R/Main.R | 30 ++-
SKAT-1.0/SKAT/R/Main_SSD.R | 71 +++++++
SKAT-1.0/SKAT/R/SKAT_EMMAX.R |only
SKAT-1.0/SKAT/build |only
SKAT-1.0/SKAT/data/SKAT.example.rda |binary
SKAT-1.0/SKAT/data/SKAT.fam.example.rda |only
SKAT-1.0/SKAT/data/SKAT.haplotypes.rda |binary
SKAT-1.0/SKAT/data/SKATBinary.example.rda |only
SKAT-1.0/SKAT/data/datalist | 2
SKAT-1.0/SKAT/inst/doc/SKAT.R | 103 +++++++++--
SKAT-1.0/SKAT/inst/doc/SKAT.Rnw | 196 ++++++++++++++--------
SKAT-1.0/SKAT/inst/doc/SKAT.pdf |binary
SKAT-1.0/SKAT/man/Close_SSD.rd | 2
SKAT-1.0/SKAT/man/Generate_SSD_SetID.rd | 20 +-
SKAT-1.0/SKAT/man/Get_EffectiveNumberTest.rd |only
SKAT-1.0/SKAT/man/Get_Genotypes_SSD.rd | 6
SKAT-1.0/SKAT/man/Get_Logistic_Weights.rd | 5
SKAT-1.0/SKAT/man/Get_RequiredSampleSize.rd | 2
SKAT-1.0/SKAT/man/Get_Resampling_Pvalue.rd | 12 -
SKAT-1.0/SKAT/man/Open_SSD.rd | 8
SKAT-1.0/SKAT/man/Power_Continuous.rd | 26 +-
SKAT-1.0/SKAT/man/Power_Logistic.rd | 28 ++-
SKAT-1.0/SKAT/man/QQPlot_Adj.rd |only
SKAT-1.0/SKAT/man/Read_SNP_WeightFile.rd | 4
SKAT-1.0/SKAT/man/Resampling_FWER.rd | 13 -
SKAT-1.0/SKAT/man/SKAT.SSD.All.rd | 11 -
SKAT-1.0/SKAT/man/SKAT.fam.example.rd |only
SKAT-1.0/SKAT/man/SKAT.haplotypes.rd | 2
SKAT-1.0/SKAT/man/SKAT.rd | 4
SKAT-1.0/SKAT/man/SKATBinary.example.rd |only
SKAT-1.0/SKAT/man/SKATBinary.rd |only
SKAT-1.0/SKAT/man/SKATBinary_Single.rd |only
SKAT-1.0/SKAT/man/SKAT_CommonRare.rd | 7
SKAT-1.0/SKAT/man/SKAT_NULL_emmaX.rd |only
SKAT-1.0/SKAT/man/SKAT_Null_Model.rd | 19 +-
SKAT-1.0/SKAT/man/SKAT_Null_Model_MomentAdjust.rd | 14 -
SKAT-1.0/SKAT/man/SSD_FILE_OPEN.rd | 4
SKAT-1.0/SKAT/src/Binary_ComputeExact.cpp |only
SKAT-1.0/SKAT/src/Binary_ComputeExact.h |only
SKAT-1.0/SKAT/src/Binary_ComputeExactMC.cpp |only
SKAT-1.0/SKAT/src/Binary_ComputeExactMC.h |only
SKAT-1.0/SKAT/src/Binary_ComputeExactSKATO.cpp |only
SKAT-1.0/SKAT/src/Binary_HyperGeo.cpp |only
SKAT-1.0/SKAT/src/Binary_HyperGeo.h |only
SKAT-1.0/SKAT/src/Binary_Permu_SKAT.cpp |only
SKAT-1.0/SKAT/src/Binary_Permu_SKAT.h |only
SKAT-1.0/SKAT/src/Binary_global.cpp |only
SKAT-1.0/SKAT/src/Binary_global.h |only
SKAT-1.0/SKAT/src/Binary_resampling.c |only
SKAT-1.0/SKAT/src/mwo_reader.cpp | 15 +
SKAT-1.0/SKAT/vignettes/SKAT.Rnw | 196 ++++++++++++++--------
SKAT-1.0/SKAT/vignettes/SKATBinary.example.SetID |only
SKAT-1.0/SKAT/vignettes/SKATBinary.example.bed |only
SKAT-1.0/SKAT/vignettes/SKATBinary.example.bim |only
SKAT-1.0/SKAT/vignettes/SKATBinary.example.cov |only
SKAT-1.0/SKAT/vignettes/SKATBinary.example.fam |only
69 files changed, 638 insertions(+), 281 deletions(-)
Title: Differentially Private Regularized Logistic Regression
Diff between PrivateLR versions 1.1-69 dated 2013-06-04 and 1.2-21 dated 2014-10-31
Description: PrivateLR implements two differentially private algorithms for
estimating L2-regularized logistic regression coefficients. A randomized
algorithm F is epsilon-differentially private (C. Dwork, Differential
Privacy, ICALP 2006), if
|log(P(F(D) in S)) - log(P(F(D') in S))| <= epsilon
for any pair D, D' of datasets that differ in exactly one element, any
set S, and the randomness is taken over the choices F makes.
Author: Staal A. Vinterbo
Maintainer: Staal A. Vinterbo
DESCRIPTION | 18 ++++++----
MD5 | 6 +--
R/dplr.r | 106 +++++++++++++++++++++++++++++-------------------------------
man/dplr.Rd | 80 +++++++++++++++++++++++++++++++++++----------
4 files changed, 130 insertions(+), 80 deletions(-)
Title: A tool for downloading functional traits data for plant species
Diff between TR8 versions 0.9 dated 2014-10-28 and 0.9.11 dated 2014-10-31
Description: Plant ecologists often need to collect "traits" data
about plant species which are often scattered among various
databases: TR8 contains a set of tools which take care of
automatically retrieving some of those functional traits data
for plant species from publicly available databases (Biolflor,
The Ecological Flora of the British Isles, LEDA traitbase, Ellenberg
values for Italian Flora, Mycorrhizal intensity database).
The TR8 name, inspired by "car plates" jokes, was chosen since
it both reminds of the main object of the package and is
extremely short to type.
Author: Gionata Bocci
Maintainer: Gionata Bocci
DESCRIPTION | 6 +++---
MD5 | 38 +++++++++++++++++++-------------------
R/local_storage.R | 5 ++---
build/vignette.rds |binary
data/ECOFLORA_df.rda |binary
data/available_tr8.rda |binary
data/biolflor_lookup.rda |binary
data/column_list.rda |binary
data/leda_lookup.rda |binary
data/pignatti.rda |binary
data/traits_Biolflor.rda |binary
data/traits_eco.rda |binary
inst/doc/Expanding_TR8.pdf |binary
inst/doc/TR8.pdf |binary
inst/doc/TR8_workflow.pdf |binary
man/TR8-package.Rd | 14 +++++++-------
man/Tr8-class.Rd | 10 ++++++----
man/available_tr8.Rd | 2 +-
man/available_traits.Rd | 2 +-
man/tr8.Rd | 7 ++++---
20 files changed, 43 insertions(+), 41 deletions(-)
Title: Friendly regular expressions
Diff between rex versions 0.1.1 dated 2014-10-20 and 0.1.2 dated 2014-10-31
Description: A more friendly, human-readable interface for the
construction of regular expressions.
Author: Kevin Ushey [aut],
Jim Hester [cre, aut]
Maintainer: Jim Hester
DESCRIPTION | 12 ++++++------
MD5 | 9 +++++----
NAMESPACE | 1 +
R/rex.R | 11 +++++++++++
README.md | 7 +++++++
man/register_shortcuts.Rd |only
6 files changed, 30 insertions(+), 10 deletions(-)
Title: Statistical experiments on batch computing clusters.
Diff between BatchExperiments versions 1.3 dated 2014-09-24 and 1.4 dated 2014-10-31
More information about BatchExperiments at CRAN
Description: Extends the BatchJobs package to run statistical experiments on
batch computing clusters. For further details see the project web page.
Author: Bernd Bischl
Maintainer: Michel Lang
DESCRIPTION | 11 ++++++-----
MD5 | 10 +++++-----
NEWS | 5 +++++
R/addExperiments.R | 4 ++--
R/reduceResultsExperiments.R | 12 +++++++++---
man/reduceResultsExperiments.Rd | 7 ++++++-
6 files changed, 33 insertions(+), 16 deletions(-)
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-02-20 1.1
2012-12-18 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-10-21 1.2.1
2012-08-24 1.02
Title: Find every match, or orphan, duplicate, triplicate, or other
replicated values
Diff between tuple versions 0.4-01 dated 2014-08-22 and 0.4-02 dated 2014-10-31
Description: Functions to find all matches or non-matches, orphans, and
duplicate or other replicated elements.
Author: Emmanuel Lazaridis [aut, cre]
Maintainer: Emmanuel Lazaridis
DESCRIPTION | 12 +++----
MD5 | 29 +++++++++---------
NAMESPACE | 3 +
R/tuple-package.R | 6 +--
R/tuple.package.R | 81 ++++++++++++++++++++++++++++++++++++++++++++++++++-
inst/CITATION | 4 +-
man/duplicate.Rd | 2 -
man/matchAll.Rd | 2 -
man/matchNone.Rd |only
man/not-in.Rd | 2 -
man/orphan.Rd | 2 -
man/triplicate.Rd | 2 -
man/triplicated.Rd | 6 +--
man/tuple-package.Rd | 13 +++++---
man/tuplicate.Rd | 2 -
man/tuplicated.Rd | 6 +--
16 files changed, 128 insertions(+), 44 deletions(-)
Title: Local Approximate Gaussian Process Regression
Diff between laGP versions 1.1-2 dated 2014-10-17 and 1.1-3 dated 2014-10-31
Description: Performs approximate GP regression for large computer experiments and spatial datasets. The approximation is based on finding small local designs for prediction (independently) at particular inputs. OpenMP and SNOW parallelization are supported for prediction over a vast out-of-sample testing set; GPU acceleration is also supported for an important subroutine. OpenMP and GPU features may require special compilation. An interface to lower-level (full) GP inference and prediction is also provided, as are associated wrapper routines for blackbox optimization under constraints via an augmented Lagrangian scheme, and large scale computer model calibration
Author: Robert B. Gramacy
Maintainer: Robert B. Gramacy
ChangeLog | 13 +++++
DESCRIPTION | 7 +--
MD5 | 20 ++++----
inst/doc/laGP.R | 122 +++++++++++++++++++++++++++--------------------------
inst/doc/laGP.Rnw | 47 ++++++++++++++------
inst/doc/laGP.pdf |binary
man/aGP.Rd | 12 +++--
src/gp_sep.c | 12 ++---
src/laGP.c | 38 ++++++++++++++--
vignettes/laGP.Rnw | 47 ++++++++++++++------
vignettes/laGP.bib | 19 ++++----
11 files changed, 218 insertions(+), 119 deletions(-)