Title: Bayesian Accrual Prediction
Description: Subject recruitment for medical research is challenging. Slow patient accrual leads to delay in research. Accrual monitoring during the process of recruitment is critical. Researchers need reliable tools to manage the accrual rate. We developed a Bayesian method that integrates researcher's experience on previous trials and data from the current study, providing reliable prediction on accrual rate for clinical studies. In this R package, we present functions for Bayesian accrual prediction which can be easily used by statisticians and clinical researchers.
Author: Junhao Liu, Yu Jiang, Cen Wu, Steve Simon, Matthew S. Mayo, Rama Raghavan, Byron J. Gajewski
Maintainer: Junhao Liu <jliu4@kumc.edu>
Diff between accrual versions 1.1 dated 2015-06-10 and 1.2 dated 2016-07-17
accrual-1.1/accrual/R/accrual.R |only accrual-1.1/accrual/man/accrual.T.Rd |only accrual-1.1/accrual/man/accrual.n.Rd |only accrual-1.2/accrual/DESCRIPTION | 16 +++++------ accrual-1.2/accrual/MD5 | 33 ++++++++++++++++-------- accrual-1.2/accrual/NAMESPACE | 8 ++++- accrual-1.2/accrual/R/accrual-internal.R |only accrual-1.2/accrual/R/accrual.T.hedging.R |only accrual-1.2/accrual/R/accrual.T.inform.R |only accrual-1.2/accrual/R/accrual.T.plot.R |only accrual-1.2/accrual/R/accrual.data.R |only accrual-1.2/accrual/R/accrual.gui.R |only accrual-1.2/accrual/R/accrual.n.hedging.R |only accrual-1.2/accrual/R/accrual.n.inform.R |only accrual-1.2/accrual/R/accrual.n.plot.R |only accrual-1.2/accrual/R/accrual.plots.R |only accrual-1.2/accrual/man/accrual-package.Rd | 28 ++++++++++---------- accrual-1.2/accrual/man/accrual.T.hedging.Rd |only accrual-1.2/accrual/man/accrual.T.inform.Rd |only accrual-1.2/accrual/man/accrual.T.plot.Rd | 37 +++++++++++++++------------ accrual-1.2/accrual/man/accrual.data.Rd | 4 +- accrual-1.2/accrual/man/accrual.gui.Rd | 8 ++--- accrual-1.2/accrual/man/accrual.n.hedging.Rd |only accrual-1.2/accrual/man/accrual.n.inform.Rd |only accrual-1.2/accrual/man/accrual.n.plot.Rd | 37 +++++++++++++++------------ accrual-1.2/accrual/man/accrual.plots.Rd | 18 ++++++++----- 26 files changed, 110 insertions(+), 79 deletions(-)
Title: Heuristics Including Take the Best and Unit-Weight Linear
Description: Implements various heuristics like Take The Best and
unit-weight linear, which do two-alternative choice: which of
two objects will have a higher criterion? Also offers functions
to assess performance, e.g. percent correct across all row pairs
in a data set and finding row pairs where models disagree.
New models can be added by implementing a fit and predict function--
see vignette.
Author: Jean Whitmore [aut, cre],
Daniel Barkoczi [aut]
Maintainer: Jean Whitmore <jeanimal@gmail.com>
Diff between heuristica versions 1.0.0 dated 2016-06-18 and 1.0.1 dated 2016-07-17
DESCRIPTION | 6 - MD5 | 51 ++++----- NEWS.md |only R/aggregators.R | 49 ++++++++- R/row_pair_apply.R | 106 ++++++++++++++++---- README.md | 48 +++++---- build/vignette.rds |binary inst/doc/README.Rmd | 7 - inst/doc/README.html | 92 ++++++++++------- inst/doc/confusion-matrix.Rmd | 25 +++- inst/doc/confusion-matrix.html | 185 ++++++++++++++++++++++++----------- inst/doc/cross-validation.Rmd | 2 inst/doc/cross-validation.html | 80 +++++++++------ inst/doc/how-to-make-heuristic.Rmd | 2 inst/doc/how-to-make-heuristic.html | 137 ++++++++++++++----------- inst/doc/reproducing-results.R | 2 inst/doc/reproducing-results.Rmd | 2 inst/doc/reproducing-results.html | 60 +++++++---- man/heuristics.Rd | 44 ++++++-- man/heuristicsList.Rd | 46 +++++++- tests/testthat/test-aggregators.R | 79 ++++++++++++++ tests/testthat/test-row_pair_apply.R | 23 ++++ vignettes/README.Rmd | 7 - vignettes/confusion-matrix.Rmd | 25 +++- vignettes/cross-validation.Rmd | 2 vignettes/how-to-make-heuristic.Rmd | 2 vignettes/reproducing-results.Rmd | 2 27 files changed, 764 insertions(+), 320 deletions(-)
Title: Analise multivariada (brazilian portuguese)
Description: Pacote para analise multivariada, que possui funcoes que executam analise de correspondencia simples (CA) e multipla (MCA), analise de componentes principais (PCA), analise de correlacao canonica (CCA), analise fatorial (FA), escalonamento multidimensional (MDS), analise de cluster hierarquico e nao hierarquico, regressao linear, analise de multiplos fatores (MFA) para dados quantitativos, qualitativos, de frequencia (MFACT) e dados mistos. Tambem possui outras funcoes uteis para a analise multivariada.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@dex.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MVar.pt versions 1.9.1 dated 2016-06-28 and 1.9.2 dated 2016-07-17
DESCRIPTION | 10 +++++----- MD5 | 30 +++++++++++++++++++----------- NAMESPACE | 4 ++++ R/Cluster.R |only R/MDS.R |only R/MFA.R | 3 +++ R/NormTest.R | 27 +++++++++++++++++++-------- R/Plot.Regressao.R |only R/Regressao.R |only man/Biplot.Rd | 3 ++- man/CCA.Rd | 3 ++- man/Cluster.Rd |only man/FA.Rd | 11 ++++++----- man/MDS.Rd |only man/MVar.pt-package.Rd | 8 +++++--- man/NormTest.Rd | 9 ++++++++- man/PCA.Rd | 2 ++ man/Plot.MFA.Rd | 4 ++-- man/Plot.Regressao.Rd |only man/Regressao.Rd |only 20 files changed, 77 insertions(+), 37 deletions(-)
Title: Multi-Resolution Scanning for Cross-Sample Differences
Description: An implementation of the MRS algorithm for comparison across distributions.
The model is based on a nonparametric process taking the form of a Markov model
that transitions between a "null" and an "alternative" state
on a multi-resolution partition tree of the sample space.
MRS effectively detects and characterizes a variety of underlying differences.
These differences can be visualized using several plotting functions.
Author: Jacopo Soriano and Li Ma
Maintainer: Jacopo Soriano <jsoriano.stat@gmail.com>
Diff between MRS versions 1.1.1 dated 2016-07-10 and 1.2 dated 2016-07-17
DESCRIPTION | 8 - MD5 | 44 +++---- NAMESPACE | 2 R/RcppExports.R | 8 - R/andova.R |only R/mrs.R | 17 ++ R/plot1D.R | 47 +++++-- R/plot2D.R | 46 +++++-- R/plotTree.R | 43 +++++-- R/print.summary.mrs.R | 11 + R/summary.mrs.R | 11 + man/andova.Rd |only man/mrs.Rd | 15 ++ man/plot1D.Rd | 18 ++- man/plot2D.Rd | 18 ++- man/plotTree.Rd | 17 ++ man/print.summary.mrs.Rd | 12 +- man/summary.mrs.Rd | 12 +- src/RcppExports.cpp | 34 +++++ src/helpers.cpp | 7 - src/helpers.h | 8 - src/main.cpp | 14 +- src/recursion.cpp | 280 ++++++++++++++++++++++++++++++++++++----------- src/recursion.h | 18 ++- 24 files changed, 519 insertions(+), 171 deletions(-)
Title: R Interface to the Vowpal Wabbit
Description: The 'Vowpal Wabbit' project is a fast out-of-core learning
system sponsored by Microsoft Research (having started at Yahoo! Research)
and written by John Langford along with a number of contributors. This R
package does not include the distributed computing implementation of the
cluster/ directory of the upstream sources. Use of the software as a network
service is also not directly supported as the aim is a simpler direct call
from R for validation and comparison.
Author: Dirk Eddelbuettel <edd@debian.org>
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RVowpalWabbit versions 0.0.6 dated 2014-01-07 and 0.0.7 dated 2016-07-17
ChangeLog | 27 +++++++++++++++++++++++++++ DESCRIPTION | 40 ++++++++++++++-------------------------- MD5 | 18 +++++++++--------- NAMESPACE | 3 ++- README.md | 15 ++++++++------- src/R_vw.cpp | 2 +- src/allreduce.cc | 2 +- src/lda_core.cc | 2 +- src/parse_regressor.cc | 6 ++++-- src/parser.cc | 3 ++- 10 files changed, 69 insertions(+), 49 deletions(-)
Title: High Frequency Portfolio Analytics by PortfolioEffect
Description: R interface to PortfolioEffect cloud service for backtesting
high frequency trading (HFT) strategies, intraday portfolio analysis
and optimization. Includes auto-calibrating model pipeline for market
microstructure noise, risk factors, price jumps/outliers, tail risk
(high-order moments) and price fractality (long memory). Constructed
portfolios could use client-side market data or access HF intraday price
history for all major US Equities. See https://www.portfolioeffect.com/
for more information on the PortfolioEffect high frequency portfolio
analytics platform.
Author: Aleksey Zemnitskiy [aut, cre],
Andrey Kostin [aut],
Oleg Nechaev [aut],
Craig Otis and others [ctb, cph] (OpenFAST library),
Daniel Lemire, Muraoka Taro and others [ctb, cph] (JavaFastPFOR
library),
Joe Walnes, Jorg Schaible and others [ctb, cph] (XStream library),
Dain Sundstrom [ctb, cph] (Snappy library),
Extreme! Lab, Indiana University [ctb, cph] (XPP3 library),
The Apache Software Foundation [ctb, cph] (Apache Log4j and Commons
Lang libraries),
Google, Inc. [ctb, cph] (GSON library),
Free Software Foundation [ctb, cph] (GNU Trove and GNU Crypto
libraries)
Maintainer: Aleksey Zemnitskiy <aleksey.zemnitskiy@portfolioeffect.com>
Diff between PortfolioEffectHFT versions 1.5 dated 2016-02-01 and 1.6 dated 2016-07-17
PortfolioEffectHFT-1.5/PortfolioEffectHFT/vignettes/img |only PortfolioEffectHFT-1.6/PortfolioEffectHFT/DESCRIPTION | 6 PortfolioEffectHFT-1.6/PortfolioEffectHFT/MD5 | 11 - PortfolioEffectHFT-1.6/PortfolioEffectHFT/NEWS | 93 +++++----- PortfolioEffectHFT-1.6/PortfolioEffectHFT/inst/doc/PortfolioEffectHFT.Rnw | 2 PortfolioEffectHFT-1.6/PortfolioEffectHFT/inst/doc/PortfolioEffectHFT.pdf |binary PortfolioEffectHFT-1.6/PortfolioEffectHFT/vignettes/PortfolioEffectHFT.Rnw | 2 7 files changed, 58 insertions(+), 56 deletions(-)
More information about PortfolioEffectHFT at CRAN
Permanent link
Title: Create Graph Diagrams and Flowcharts Using R
Description: Create graph diagrams and flowcharts using R.
Author: Knut Sveidqvist [aut, cph] (mermaid.js library in htmlwidgets/lib,
http://github.com/knsv/mermaid/),
Mike Bostock [aut, cph] (d3.js library in htmlwidgets/lib,
http://d3js.org),
Chris Pettitt [aut, cph] (dagre-d3.js library in htmlwidgets/lib,
http://github.com/cpettitt/dagre-d3),
Mike Daines [aut, cph] (viz.js library in htmlwidgets/lib,
http://github.com/mdaines/viz.js/),
Andrei Kashcha [aut, cph] (vivagraphjs library in htmlwidgets/lib,
https://github.com/anvaka/VivaGraphJS),
Richard Iannone [aut, cre] (R interface)
Maintainer: Richard Iannone <riannone@me.com>
Diff between DiagrammeR versions 0.8.3 dated 2016-07-16 and 0.8.4 dated 2016-07-17
DESCRIPTION | 16 ++++++++-------- MD5 | 8 ++++---- NAMESPACE | 2 -- R/export_graph.R | 9 ++++----- README.md | 2 +- 5 files changed, 17 insertions(+), 20 deletions(-)
Title: Precipitation Intensity, Concentration and Anomaly Analysis
Description: It contains functions to analyze the precipitation
intensity, concentration and anomaly.
Author: Lucas Venezian Povoa [aut, cre],
Jonas Teixeira Nery [ctb]
Maintainer: Lucas Venezian Povoa <lucasvenez@gmail.com>
Diff between precintcon versions 2.2.1 dated 2016-01-21 and 2.3.0 dated 2016-07-17
DESCRIPTION | 25 +-- MD5 | 224 +++++++++++++++-------------- NAMESPACE | 187 +++++++++++++----------- R/app.r | 138 +++++++++--------- R/as.annual.r | 72 ++++----- R/as.daily.r | 198 +++++++++++++------------- R/as.decade.r | 72 ++++----- R/as.deciles.r | 86 +++++------ R/as.fd.r | 92 ++++++------ R/as.monthly.r | 64 ++++---- R/as.precintcon.annual.r | 32 ++-- R/as.precintcon.daily.r | 44 ++--- R/as.precintcon.decade.r | 36 ++-- R/as.precintcon.deciles.r | 28 +-- R/as.precintcon.fd.r | 28 +-- R/as.precintcon.monthly.r | 46 +++--- R/as.precintcon.seasonal.r | 54 +++---- R/as.seasonal.r | 70 ++++----- R/ci.per.year.r | 68 ++++---- R/ci.r | 80 +++++----- R/cv.r | 44 ++--- R/deciles.r | 6 R/ff.index.r | 72 ++++----- R/limits.r | 68 ++++---- R/pcd.r |only R/pci.r | 68 ++++---- R/pci.seasonal.r | 102 ++++++------- R/pci.supraseasonal.r | 110 +++++++------- R/pcp.r |only R/pn.r | 86 +++++------ R/pplot.ci.r |only R/pplot.deciles.r | 141 +++++++++--------- R/pplot.histogram.r | 132 ++++++++--------- R/pplot.lorenz.r | 156 +++++++++----------- R/pplot.pcd.r |only R/pplot.pci.r | 122 +++++++--------- R/pplot.pcp.r |only R/pplot.pn.r | 139 ++++++++---------- R/pplot.rai.r | 131 ++++++++--------- R/pplot.spi.r | 141 ++++++++---------- R/precintcon.H.r | 42 ++--- R/precintcon.Z.r | 106 ++++++------- R/precintcon.b.r | 58 +++---- R/precintcon.ci.analysis.r | 96 ++++++------ R/precintcon.ci.per.year.analysis.r | 60 +++---- R/precintcon.classification.r | 104 ++++++------- R/precintcon.deciles.analysis.r | 72 ++++----- R/precintcon.fd.r | 206 +++++++++++++-------------- R/precintcon.gamma.r | 108 +++++++------- R/precintcon.limits.analysis.r | 58 +++---- R/precintcon.ln.a.r | 62 ++++---- R/precintcon.max.r | 78 +++++----- R/precintcon.min.r | 80 +++++----- R/precintcon.monthly.aggregation.r | 62 ++++---- R/precintcon.pci.analysis.r | 46 +++--- R/precintcon.plot.deciles.r | 155 ++++++++++---------- R/precintcon.plot.histogram.r | 244 ++++++++++++++++---------------- R/precintcon.plot.lorenz.r | 266 +++++++++++++++++------------------ R/precintcon.plot.lorenz.ungrouped.r | 132 ++++++++--------- R/precintcon.plot.pci.r | 142 +++++++++--------- R/precintcon.plot.pn.r | 212 +++++++++++++-------------- R/precintcon.plot.rai.r | 224 ++++++++++++++--------------- R/precintcon.plot.spi.r | 186 ++++++++++++------------ R/precintcon.pn.analysis.r | 34 ++-- R/precintcon.pn.r | 122 ++++++++-------- R/precintcon.r | 223 ++++++++++++++--------------- R/precintcon.r.squared.r | 44 ++--- R/precintcon.rai.analysis.r | 82 +++++----- R/precintcon.read.data.r | 122 ++++++++-------- R/precintcon.spi.analysis.r | 116 +++++++-------- R/precintcon.spi.per.year.analysis.r | 44 ++--- R/precintcon.stat.analysis.r | 150 +++++++++---------- R/rai.r | 66 ++++---- R/read.data.r | 88 +++++------ R/spi.per.year.r | 70 ++++----- R/spi.r | 66 ++++---- R/stat.r | 68 ++++---- R/tii.r | 48 +++--- R/trend.test.r | 120 +++++++-------- README.md |only man/app.Rd | 96 ++++++------ man/as.annual.Rd | 92 ++++++------ man/as.daily.Rd | 218 ++++++++++++++-------------- man/as.decade.Rd | 100 ++++++------- man/as.deciles.Rd | 106 ++++++------- man/as.fd.Rd | 118 +++++++-------- man/as.monthly.Rd | 86 +++++------ man/as.seasonal.Rd | 98 ++++++------ man/ci.Rd | 110 +++++++------- man/ci.per.year.Rd | 94 ++++++------ man/cv.Rd | 66 ++++---- man/daily.Rd | 114 +++++++-------- man/ff.index.Rd | 68 ++++---- man/limits.Rd | 90 +++++------ man/monthly.Rd | 54 +++---- man/pcd.Rd |only man/pci.Rd | 90 +++++------ man/pci.seasonal.Rd | 76 +++++----- man/pci.supraseasonal.Rd | 84 +++++------ man/pcp.Rd |only man/pn.Rd | 108 +++++++------- man/pplot.deciles.Rd | 134 ++++++++--------- man/pplot.histogram.Rd | 136 ++++++++--------- man/pplot.lorenz.Rd | 155 ++++++++++---------- man/pplot.pcd.Rd |only man/pplot.pci.Rd | 126 ++++++++-------- man/pplot.pcp.Rd |only man/pplot.pn.Rd | 142 +++++++++--------- man/pplot.rai.Rd | 146 +++++++++---------- man/pplot.spi.Rd | 142 +++++++++--------- man/precintcon.Rd | 90 +++++------ man/rai.Rd | 102 ++++++------- man/read.data.Rd | 124 ++++++++-------- man/spi.Rd | 100 ++++++------- man/spi.per.year.Rd | 104 ++++++------- man/stat.Rd | 92 ++++++------ man/tii.Rd | 68 ++++---- man/trend.test.Rd | 68 ++++---- 118 files changed, 5500 insertions(+), 5521 deletions(-)
Title: Hierarchical Bayesian Modeling of Decision-Making Tasks
Description: Fit an array of decision-making tasks with computational models in a hierarchical Bayesian framework. Can perform hierarchical Bayesian analysis of various computational models with a single line of coding.
Author: Woo-Young Ahn [aut, cre],
Nate Haines [aut],
Lei Zhang [aut]
Maintainer: Woo-Young Ahn <ahn.280@osu.edu>
Diff between hBayesDM versions 0.2.1 dated 2016-04-03 and 0.2.3 dated 2016-07-17
hBayesDM-0.2.1/hBayesDM/R/bandit2arm.R |only hBayesDM-0.2.1/hBayesDM/inst/stan/bandit2arm.stan |only hBayesDM-0.2.1/hBayesDM/man/bandit2arm.Rd |only hBayesDM-0.2.3/hBayesDM/DESCRIPTION | 10 hBayesDM-0.2.3/hBayesDM/MD5 | 122 ++-- hBayesDM-0.2.3/hBayesDM/NAMESPACE | 8 hBayesDM-0.2.3/hBayesDM/R/bandit2arm_delta.R |only hBayesDM-0.2.3/hBayesDM/R/dd_cs.R | 105 ++-- hBayesDM-0.2.3/hBayesDM/R/dd_exp.R | 102 ++-- hBayesDM-0.2.3/hBayesDM/R/dd_hyperbolic.R | 104 ++-- hBayesDM-0.2.3/hBayesDM/R/gng_m1.R | 162 ++++-- hBayesDM-0.2.3/hBayesDM/R/gng_m2.R | 157 ++++-- hBayesDM-0.2.3/hBayesDM/R/gng_m3.R | 162 ++++-- hBayesDM-0.2.3/hBayesDM/R/gng_m4.R | 154 ++++-- hBayesDM-0.2.3/hBayesDM/R/hBayesDM.R | 17 hBayesDM-0.2.3/hBayesDM/R/igt_pvl_decay.R | 106 ++-- hBayesDM-0.2.3/hBayesDM/R/igt_pvl_delta.R | 109 ++-- hBayesDM-0.2.3/hBayesDM/R/igt_vpp.R | 126 ++--- hBayesDM-0.2.3/hBayesDM/R/plotHDI.R | 11 hBayesDM-0.2.3/hBayesDM/R/prl_ewa.R |only hBayesDM-0.2.3/hBayesDM/R/prl_fictitious.R | 133 +++-- hBayesDM-0.2.3/hBayesDM/R/prl_rp.R |only hBayesDM-0.2.3/hBayesDM/R/ra_noLA.R |only hBayesDM-0.2.3/hBayesDM/R/ra_noRA.R |only hBayesDM-0.2.3/hBayesDM/R/ra_prospect.r | 104 ++-- hBayesDM-0.2.3/hBayesDM/R/ug_bayes.R |only hBayesDM-0.2.3/hBayesDM/R/ug_delta.R |only hBayesDM-0.2.3/hBayesDM/inst/NEWS |only hBayesDM-0.2.3/hBayesDM/inst/extdata/bandit2arm_exampleData.txt | 2 hBayesDM-0.2.3/hBayesDM/inst/extdata/prl_exampleData.txt | 2 hBayesDM-0.2.3/hBayesDM/inst/extdata/ug_exampleData.txt |only hBayesDM-0.2.3/hBayesDM/inst/extdata/ug_exampleData_N7.txt |only hBayesDM-0.2.3/hBayesDM/inst/plotting/plot_functions.R | 68 ++ hBayesDM-0.2.3/hBayesDM/inst/stan/bandit2arm_delta.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/dd_cs.stan | 126 ++--- hBayesDM-0.2.3/hBayesDM/inst/stan/dd_exp.stan | 108 ++-- hBayesDM-0.2.3/hBayesDM/inst/stan/dd_hyperbolic.stan | 107 ++-- hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m1.stan | 72 +- hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m1_reg.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m2.stan | 80 +-- hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m2_reg.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m3.stan | 96 +-- hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m3_reg.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m4.stan | 116 ++-- hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m4_reg.rda |only hBayesDM-0.2.3/hBayesDM/inst/stan/gng_m4_reg.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/igt_pvl_decay.stan | 250 ++++------ hBayesDM-0.2.3/hBayesDM/inst/stan/igt_pvl_delta.stan | 245 ++++----- hBayesDM-0.2.3/hBayesDM/inst/stan/igt_vpp.stan | 178 ++----- hBayesDM-0.2.3/hBayesDM/inst/stan/prl_ewa.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/prl_fictitious.stan | 178 +++---- hBayesDM-0.2.3/hBayesDM/inst/stan/prl_rp.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/ra_noLA.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/ra_noRA.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/ra_prospect.stan | 29 - hBayesDM-0.2.3/hBayesDM/inst/stan/ug_bayes.stan |only hBayesDM-0.2.3/hBayesDM/inst/stan/ug_delta.stan |only hBayesDM-0.2.3/hBayesDM/man/bandit2arm_delta.Rd |only hBayesDM-0.2.3/hBayesDM/man/dd_cs.Rd | 50 +- hBayesDM-0.2.3/hBayesDM/man/dd_exp.Rd | 49 + hBayesDM-0.2.3/hBayesDM/man/dd_hyperbolic.Rd | 51 +- hBayesDM-0.2.3/hBayesDM/man/gng_m1.Rd | 50 +- hBayesDM-0.2.3/hBayesDM/man/gng_m2.Rd | 55 +- hBayesDM-0.2.3/hBayesDM/man/gng_m3.Rd | 52 +- hBayesDM-0.2.3/hBayesDM/man/gng_m4.Rd | 54 +- hBayesDM-0.2.3/hBayesDM/man/hBayesDM-package.Rd | 25 - hBayesDM-0.2.3/hBayesDM/man/igt_pvl_decay.Rd | 51 +- hBayesDM-0.2.3/hBayesDM/man/igt_pvl_delta.Rd | 52 +- hBayesDM-0.2.3/hBayesDM/man/igt_vpp.Rd | 54 +- hBayesDM-0.2.3/hBayesDM/man/plotHDI.Rd | 4 hBayesDM-0.2.3/hBayesDM/man/prl_ewa.Rd |only hBayesDM-0.2.3/hBayesDM/man/prl_fictitious.Rd | 61 +- hBayesDM-0.2.3/hBayesDM/man/prl_rp.Rd |only hBayesDM-0.2.3/hBayesDM/man/ra_noLA.Rd |only hBayesDM-0.2.3/hBayesDM/man/ra_noRA.Rd |only hBayesDM-0.2.3/hBayesDM/man/ra_prospect.Rd | 62 +- hBayesDM-0.2.3/hBayesDM/man/ug_bayes.Rd |only hBayesDM-0.2.3/hBayesDM/man/ug_delta.Rd |only 78 files changed, 2465 insertions(+), 1554 deletions(-)
Title: Calculate Cluster-Robust p-Values and Confidence Intervals
Description: Calculate p-values and confidence intervals using cluster-adjusted
t-statistics (based on Ibragimov and Muller (2010) <DOI:10.1198/jbes.2009.08046>, pairs cluster bootstrapped t-statistics, and wild cluster bootstrapped t-statistics (the latter two techniques based on Cameron, Gelbach, and Miller (2008) <DOI:10.1162/rest.90.3.414>. Procedures are included for use with GLM, ivreg, plm (pooling or fixed effects), and mlogit models.
Author: Justin Esarey [aut, cre]
Maintainer: Justin Esarey <justin@justinesarey.com>
Diff between clusterSEs versions 2.3.1 dated 2016-06-06 and 2.3.2 dated 2016-07-17
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/clusterBS.plm.R | 2 +- R/clusterwild.plm.R | 4 ++-- 4 files changed, 10 insertions(+), 10 deletions(-)
Title: Allele Imputation and Haplotype Reconstruction from Pedigree
Databases
Description: Tools to simulate alphanumeric alleles, impute genetic missing data and reconstruct non-recombinant haplotypes from pedigree databases in a deterministic way. Allelic simulations can be implemented taking into account many factors (such as number of families, markers, alleles per marker,
probability and proportion of missing genotypes, recombination rate, etc).
Genotype imputation can be used with simulated datasets or real databases (previously loaded in .ped format). Haplotype reconstruction can be carried
out even with missing data, since the program firstly imputes each family genotype (without a reference panel), to later reconstruct the corresponding
haplotypes for each family member. All this considering that each individual (due to meiosis) should unequivocally have two alleles per marker (one inherited
from each parent) and thus imputation and reconstruction results can be deterministically calculated.
Author: Nathan Medina-Rodriguez and Angelo Santana
Maintainer: Nathan Medina-Rodriguez <nathan.medina@ulpgc.es>
Diff between alleHap versions 0.9.2 dated 2015-10-05 and 0.9.7 dated 2016-07-17
alleHap-0.9.2/alleHap/R/hapPhaser.R |only alleHap-0.9.2/alleHap/man/hapPhaser.Rd |only alleHap-0.9.7/alleHap/DESCRIPTION | 16 alleHap-0.9.7/alleHap/MD5 | 41 - alleHap-0.9.7/alleHap/NAMESPACE | 4 alleHap-0.9.7/alleHap/R/alleHaplotyper.R |only alleHap-0.9.7/alleHap/R/alleImputer.R | 155 +++-- alleHap-0.9.7/alleHap/R/alleLoader.R | 248 ++++---- alleHap-0.9.7/alleHap/R/alleSimulator.R | 328 +++++------ alleHap-0.9.7/alleHap/inst/doc/alleHap.R | 96 ++- alleHap-0.9.7/alleHap/inst/doc/alleHap.Rnw | 277 +++++---- alleHap-0.9.7/alleHap/inst/doc/alleHap.pdf |binary alleHap-0.9.7/alleHap/inst/examples/example1.ped | 454 ++++++++-------- alleHap-0.9.7/alleHap/inst/examples/example2.ped | 96 +-- alleHap-0.9.7/alleHap/inst/examples/example3.ped | 14 alleHap-0.9.7/alleHap/inst/examples/example4.ped |only alleHap-0.9.7/alleHap/man/alleHap-package.Rd | 37 - alleHap-0.9.7/alleHap/man/alleHaplotyper.Rd |only alleHap-0.9.7/alleHap/man/alleImputer.Rd | 14 alleHap-0.9.7/alleHap/man/alleLoader.Rd | 9 alleHap-0.9.7/alleHap/man/alleSimulator.Rd | 13 alleHap-0.9.7/alleHap/vignettes/alleHap-concordance.tex | 4 alleHap-0.9.7/alleHap/vignettes/alleHap.Rnw | 277 +++++---- alleHap-0.9.7/alleHap/vignettes/main_Page.tex | 2 24 files changed, 1132 insertions(+), 953 deletions(-)