Title: Efficient and accurate P-value computation for Position Weight
Matrices.
Diff between TFMPvalue versions 0.0.3 dated 2014-04-24 and 0.0.4 dated 2014-04-25
Description: TFMPvalue provides the accurate calculation of P-value with score threshold for Position Weight Matrices, or the score with given P-value. This package is an interface to code originally made available by Helene Touzet and Jean-Stephane Varre, 2007, Algorithms Mol Biol:2, 15.
Author: Ge Tan
Maintainer: Ge Tan
DESCRIPTION | 8 ++++----
MD5 | 4 ++--
src/Matrix.h | 8 ++++++--
3 files changed, 12 insertions(+), 8 deletions(-)
Title: Simulation of simple and complex survival data
Diff between survsim versions 1.0.0 dated 2013-10-29 and 1.1.0 dated 2014-04-25
Description: Simulation of simple and complex survival data
Author: David Moriña (Centre for Research in Environmental Epidemiology) and Albert Navarro (Universitat Autònoma de Barcelona)
Maintainer: David Moriña Soler
DESCRIPTION | 12 ++++++------
MD5 | 22 ++++++++++++++--------
R/crisk.ncens.sim.R |only
R/crisk.sim.R |only
R/mult.ev.sim.R | 2 +-
R/print.summary.crisk.data.sim.R |only
R/summary.crisk.data.sim.R |only
README.md |only
man/accum.Rd | 2 +-
man/crisk.sim.Rd |only
man/mult.ev.sim.Rd | 2 +-
man/rec.ev.sim.Rd | 2 +-
man/simple.surv.sim.Rd | 2 +-
man/survsim-internal.Rd | 7 +++++++
man/survsim-package.Rd | 9 ++++++---
15 files changed, 38 insertions(+), 22 deletions(-)
Title: Dendrochronology Program Library in R
Diff between dplR versions 1.5.9 dated 2014-03-25 and 1.6.0 dated 2014-04-25
Description: This package contains functions for performing tree-ring
analyses, IO, and graphics.
Author: Andy Bunn [aut, cph, cre, trl], Mikko Korpela [aut, trl], Franco Biondi [aut, cph], Filipe Campelo [aut, cph], Pierre Mérian [aut, cph], Manfred Mudelsee [aut], Fares Qeadan [aut, cph], Michael Schulz [aut], Christian Zang [aut, cph], Jacob Cecile [ctb]
Maintainer: Andy Bunn
ChangeLog | 191 +
DESCRIPTION | 12
MD5 | 232 +-
NAMESPACE | 87
R/bai.in.R | 68
R/bai.out.R | 70
R/ccf.series.rwl.R | 266 +-
R/chron.R | 65
R/common.interval.R | 504 ++--
R/corr.rwl.seg.R | 630 ++---
R/corr.series.seg.R | 316 +-
R/crn.plot.R | 106
R/detrend.R | 68
R/detrend.series.R | 244 ++
R/exactmean.R | 10
R/ffcsaps.R | 304 +-
R/fill.internal.NA.R | 130 -
R/gini.coef.R | 8
R/hanning.R | 16
R/helpers.R | 75
R/i.detrend.R | 32
R/i.detrend.series.R | 46
R/insert.ring.R |only
R/interseries.cor.R |only
R/morlet.R | 216 -
R/normalize.xdate.R | 83
R/normalize1.R | 44
R/plot.rwl.R |only
R/powt.R | 6
R/qa.xdate.R | 38
R/rcs.R | 174 -
R/read.compact.R | 75
R/read.crn.R | 283 +-
R/read.fh.R | 1
R/read.rwl.R | 114 -
R/read.tridas.R | 5207 +++++++++++++++++++++++-----------------------
R/read.tucson.R | 1
R/redfit.R | 2
R/rwi.stats.R | 166 -
R/rwi.stats.running.R | 769 +++---
R/rwl.stats.R | 64
R/seg.plot.R | 60
R/sens1.R | 8
R/sens2.R | 8
R/series.rwl.plot.R | 293 +-
R/skel.plot.R | 438 +--
R/spag.plot.R | 77
R/write.compact.R | 211 -
R/write.crn.R | 265 +-
R/write.rwl.R | 18
R/write.tridas.R | 2133 +++++++++---------
R/write.tucson.R | 491 ++--
R/xskel.ccf.plot.R |only
R/xskel.plot.R |only
TODO |only
build |only
data/anos1.rda |binary
data/ca533.rda |binary
data/cana157.rda |binary
data/co021.rda |binary
data/gp.rwl.rda |binary
inst/CITATION | 62
inst/doc |only
inst/unitTests/runit.io.R | 2
man/anos1.Rd | 44
man/bai.in.Rd | 118 -
man/bai.out.Rd | 128 -
man/ca533.Rd | 54
man/cana157.Rd | 54
man/ccf.series.rwl.Rd | 221 +
man/chron.Rd | 103
man/cms.Rd | 108
man/co021.Rd | 52
man/common.interval.Rd | 110
man/corr.rwl.seg.Rd | 262 +-
man/corr.series.seg.Rd | 181 -
man/crn.plot.Rd | 144 -
man/detrend.Rd | 38
man/detrend.series.Rd | 107
man/dplR-package.Rd | 86
man/ffcsaps.Rd | 152 -
man/fill.internal.NA.Rd | 158 -
man/gini.coef.Rd | 76
man/gp.d2pith.Rd | 54
man/gp.dbh.Rd | 56
man/gp.po.Rd | 58
man/gp.rwl.Rd | 54
man/hanning.Rd | 86
man/i.detrend.Rd | 92
man/i.detrend.series.Rd | 84
man/insert.ring.Rd |only
man/interseries.cor.Rd |only
man/morlet.Rd | 106
man/plot.rwl.Rd |only
man/print.redfit.Rd | 9
man/rcs.Rd | 200 -
man/read.compact.Rd | 58
man/read.crn.Rd | 79
man/read.ids.Rd | 508 ++--
man/read.rwl.Rd | 88
man/read.tucson.Rd | 92
man/rwi.stats.running.Rd | 520 ++--
man/rwl.stats.Rd | 119 -
man/seg.plot.Rd | 56
man/sens1.Rd | 82
man/sens2.Rd | 81
man/series.rwl.plot.Rd | 169 -
man/skel.plot.Rd | 227 +-
man/spag.plot.Rd | 68
man/write.compact.Rd | 124 -
man/write.crn.Rd | 194 -
man/write.rwl.Rd | 108
man/write.tridas.Rd | 12
man/write.tucson.Rd | 229 +-
man/xskel.ccf.plot.Rd |only
man/xskel.plot.Rd |only
src/redfit.c | 2
vignettes |only
118 files changed, 10780 insertions(+), 9820 deletions(-)
Title: Visualizing and analyzing animal track data
Diff between move versions 1.1.441-2 dated 2014-04-03 and 1.2.475 dated 2014-04-25
Description: move is a package that contains functions to access movement data stored in movebank.org as well as tools to visualize and statistically analyse animal movement data. Move addresses movement ecological questions.
Author: Bart Kranstauber
Maintainer: Bart Kranstauber
move-1.1.441-2/move/inst/unitTests/runit.brownianbridgedyn.R |only
move-1.2.475/move/ChangeLog | 88 ++++++++++
move-1.2.475/move/DESCRIPTION | 12 -
move-1.2.475/move/MD5 | 75 +++++---
move-1.2.475/move/NAMESPACE | 92 +++++++++--
move-1.2.475/move/R/AAClass.R | 89 +++++++++-
move-1.2.475/move/R/brownianbridgedyn.R | 45 ++++-
move-1.2.475/move/R/brownianmotionvariancedyn.R | 7
move-1.2.475/move/R/burst.R | 5
move-1.2.475/move/R/dBGB.R |only
move-1.2.475/move/R/getMotionVariance.R |only
move-1.2.475/move/R/interpolateTime.R |only
move-1.2.475/move/R/lineMidpoint.R | 2
move-1.2.475/move/R/moveStack.R | 8
move-1.2.475/move/R/subset.R | 16 +
move-1.2.475/move/build/vignette.rds |binary
move-1.2.475/move/inst/doc/browseMovebank.Rnw | 2
move-1.2.475/move/inst/doc/browseMovebank.pdf |binary
move-1.2.475/move/inst/doc/move.R | 4
move-1.2.475/move/inst/doc/move.Rnw | 10 -
move-1.2.475/move/inst/doc/move.pdf |binary
move-1.2.475/move/inst/unitTests/report.html |only
move-1.2.475/move/inst/unitTests/report.txt |only
move-1.2.475/move/inst/unitTests/reportSummary.txt |only
move-1.2.475/move/inst/unitTests/runit.interpolateTime.R |only
move-1.2.475/move/inst/unitTests/runit.moveStack.R | 4
move-1.2.475/move/man/Move-class.Rd | 2
move-1.2.475/move/man/as.data.frame.Rd | 6
move-1.2.475/move/man/brownian.bridge.dyn.Rd | 11 -
move-1.2.475/move/man/brownian.motion.variance.dyn.Rd | 1
move-1.2.475/move/man/dBGBvariance-class.Rd |only
move-1.2.475/move/man/dynBGB-methods.Rd |only
move-1.2.475/move/man/dynBGB.Rd |only
move-1.2.475/move/man/dynBGBvariance-methods.Rd |only
move-1.2.475/move/man/getMotionVariance.Rd |only
move-1.2.475/move/man/interpolateTime.Rd |only
move-1.2.475/move/man/move-package.Rd | 2
move-1.2.475/move/man/move.Rd | 7
move-1.2.475/move/man/moveStack.Rd | 4
move-1.2.475/move/man/subset.Rd | 4
move-1.2.475/move/src/bgbVar.c |only
move-1.2.475/move/src/bgb_bbmm.c |only
move-1.2.475/move/tests/test-all.R |only
move-1.2.475/move/tests/testthat |only
move-1.2.475/move/vignettes/browseMovebank.Rnw | 2
move-1.2.475/move/vignettes/move.Rnw | 10 -
46 files changed, 408 insertions(+), 100 deletions(-)
Title: Multivariate Response Generalized Linear Models
Diff between MGLM versions 0.0.4 dated 2014-02-23 and 0.0.5 dated 2014-04-25
Description: The package provides functions that (1) fit multivariate discrete distributions, (2) generate random numbers from multivariate discrete distributions, and (3) run regression and penalized regression on the multivariate categorical response data. Implemented models include: multinomial logit model, Dirichlet multinomial model, generalized Dirichlet multinomial model, and negative multinomial model. Making the best of the minorization-maximization (MM) algorithm and Newton-Raphson method, we derive and implement stable and efficient algorithms to find the maximum likelihood estimates. On a multi-core machine, multi-threading is supported.
Author: Yiwen Zhang
Maintainer: Yiwen Zhang
DESCRIPTION | 13
MD5 | 41 -
NAMESPACE | 10
R/MGLMfit.R | 5
R/MGLMreg.R | 1512 ++++++++++++++++++++++++++++++-------------------
R/MGLMsparsereg.R | 288 +++++----
R/MGLMtune.R | 95 ++-
R/kr.R | 4
R/pdfln.R | 23
R/plot.R |only
R/print.R | 20
inst/doc/Vignette.R | 123 ++-
inst/doc/Vignette.Rnw | 77 +-
inst/doc/Vignette.pdf |binary
man/MGLMreg-class.Rd | 2
man/MGLMreg.Rd | 1
man/MGLMtune-class.Rd |only
man/MGLMtune.Rd | 18
man/corr.plot.Rd |only
man/pkg-internal.Rd | 8
man/plot-methods.Rd |only
man/print-methods.Rd | 8
man/scatter.plot.Rd |only
vignettes/Vignette.Rnw | 77 +-
24 files changed, 1504 insertions(+), 821 deletions(-)
Title: Nucleic Acid Melting Curve Analysis on Microbead Surfaces with R
Diff between MBmca versions 0.0.2-1 dated 2013-05-30 and 0.0.3-2 dated 2014-04-25
Description: The MBmca package provides data sets and lightweight utilities for nucleic acid melting curve analysis and presentation on microbead surfaces.
Author: Stefan Roediger
Maintainer: Stefan Roediger
CHANGELOG | 13 +
DESCRIPTION | 15 -
MD5 | 34 ++--
NAMESPACE | 2
R/MFIerror.R | 6
R/diffQ.R | 58 ++++---
R/diffQ2.R | 21 +-
R/mcaPeaks.R | 4
R/mcaSmoother.R | 10 -
man/DMP.Rd | 81 ++++++----
man/DualHyb.Rd | 80 ++++++---
man/MBmca-package.Rd | 48 +++--
man/MFIerror.Rd | 101 ++++++------
man/MultiMelt.Rd | 128 +++++++++------
man/diffQ.Rd | 294 +++++++++++++++++++++++-------------
man/diffQ2.Rd | 413 ++++++++++++++++++++++++++++++---------------------
man/mcaPeaks.Rd | 54 +++---
man/mcaSmoother.Rd | 202 ++++++++++++++----------
18 files changed, 931 insertions(+), 633 deletions(-)
Title: Individual Conditional Expectation Plot Toolbox
Diff between ICEbox versions 0.1 dated 2013-10-18 and 1.0 dated 2014-04-25
Description: This package implements Individual Conditional Expectation (ICE) plots, a tool for visualizing the model estimated by any supervised learning algorithm. ICE plots refine Friedman's partial dependence plot by graphing the functional relationship between the predicted response and a covariate of interest for individual observations. Specifically, ICE plots highlight the variation in the fitted values across the range of a covariate of interest, suggesting where and to what extent they may exist.
Author: Alex Goldstein, Adam Kapelner, Justin Bleich
Maintainer: Adam Kapelner
DESCRIPTION | 8 ++++----
MD5 | 19 ++++++++++---------
NAMESPACE | 6 +++---
R/ice.R | 13 ++++++++-----
R/plot.dice.R | 22 +++++++++++++---------
R/plot.ice.R | 37 ++++++++++++++++++++++++-------------
inst |only
man/dice.Rd | 9 ++++++---
man/ice.Rd | 14 +++++++++-----
man/plot.dice.Rd | 8 ++++----
man/plot.ice.Rd | 32 ++++++++++++++++++++------------
11 files changed, 101 insertions(+), 67 deletions(-)
Title: Discrete Laplace mixture inference using the EM algorithm
Diff between disclapmix versions 1.3 dated 2014-04-07 and 1.4 dated 2014-04-25
Description: disclapmix makes inference in a mixture of Discrete Laplace distributions using the EM algorithm. This can e.g. be used for modelling the distribution of Y chromosomal haplotypes as described in [1, 2] (refer to the URL section).
Author: Mikkel Meyer Andersen and Poul Svante Eriksen
Maintainer: Mikkel Meyer Andersen
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++++-----
NAMESPACE | 10 ++++++++++
NEWS | 4 ++++
R/disclapmix.R | 12 ++++++++++++
R/helper.R | 9 +++++++++
R/mixture.R |only
man/contributor_pairs.Rd |only
man/generate_mixture.Rd |only
man/rank_contributor_pairs.Rd |only
10 files changed, 48 insertions(+), 9 deletions(-)
Title: Procedures to generate IRT adaptive tests (CAT)
Diff between catR versions 2.6 dated 2013-12-03 and 3.0 dated 2014-04-25
Description: The catR package allows the generation of response patterns under computerized adaptive testing (CAT) framework, with the choice of several starting rules, next item selection routines, stopping rules and ability estimators. Control methods for item exposure and content balancing are also included.
Author: David Magis (U Liege, Belgium), Gilles Raiche (UQAM, Canada), Juan Ramon Barrada (U Zaragoza, Spain)
Maintainer: David Magis
catR-2.6/catR/R/createItemBank.R |only
catR-2.6/catR/inst/doc |only
catR-2.6/catR/man/createItemBank.Rd |only
catR-3.0/catR/DESCRIPTION | 20
catR-3.0/catR/MD5 | 87 +-
catR-3.0/catR/NAMESPACE | 2
catR-3.0/catR/NEWS | 183 +++++-
catR-3.0/catR/R/EPV.R | 22
catR-3.0/catR/R/Ii.R | 16
catR-3.0/catR/R/Ji.R |only
catR-3.0/catR/R/KL.R |only
catR-3.0/catR/R/MEI.R | 28
catR-3.0/catR/R/MWI.R | 55 +
catR-3.0/catR/R/OIi.R | 14
catR-3.0/catR/R/Pi.R | 72 ++
catR-3.0/catR/R/breakBank.R |only
catR-3.0/catR/R/eapEst.R | 32 -
catR-3.0/catR/R/eapSem.R | 32 -
catR-3.0/catR/R/genDichoMatrix.R |only
catR-3.0/catR/R/genPattern.R |only
catR-3.0/catR/R/genPolyMatrix.R |only
catR-3.0/catR/R/integrate.catR.R |only
catR-3.0/catR/R/nextItem.R | 375 ++++++++----
catR-3.0/catR/R/randomCAT.R | 932 ++++++++++++++++++-------------
catR-3.0/catR/R/semTheta.R | 35 -
catR-3.0/catR/R/simulateRespondents.R |only
catR-3.0/catR/R/startItems.R | 142 ++--
catR-3.0/catR/R/test.cbList.R | 92 ++-
catR-3.0/catR/R/testList.R | 34 -
catR-3.0/catR/R/thetaEst.R | 46 -
catR-3.0/catR/man/EPV.Rd | 113 ++-
catR-3.0/catR/man/Ii.Rd | 59 +
catR-3.0/catR/man/Ji.Rd |only
catR-3.0/catR/man/KL.Rd |only
catR-3.0/catR/man/MEI.Rd | 136 ++--
catR-3.0/catR/man/MWI.Rd | 157 +++--
catR-3.0/catR/man/OIi.Rd | 80 +-
catR-3.0/catR/man/Pi.Rd | 84 +-
catR-3.0/catR/man/breakBank.Rd |only
catR-3.0/catR/man/eapEst.Rd | 90 ++
catR-3.0/catR/man/eapSem.Rd | 101 ++-
catR-3.0/catR/man/genDichoMatrix.Rd |only
catR-3.0/catR/man/genPattern.Rd |only
catR-3.0/catR/man/genPolyMatrix.Rd |only
catR-3.0/catR/man/integrate.catR.Rd |only
catR-3.0/catR/man/nextItem.Rd | 404 ++++++++-----
catR-3.0/catR/man/randomCAT.Rd | 370 ++++++------
catR-3.0/catR/man/semTheta.Rd | 183 ++++--
catR-3.0/catR/man/simulateRespondents.Rd |only
catR-3.0/catR/man/startItems.Rd | 162 ++++-
catR-3.0/catR/man/tcals.Rd | 4
catR-3.0/catR/man/test.cbList.Rd | 83 +-
catR-3.0/catR/man/testList.Rd | 23
catR-3.0/catR/man/thetaEst.Rd | 147 +++-
54 files changed, 2958 insertions(+), 1457 deletions(-)
Title: Logistic Regression
Diff between BayesLogit versions 0.3 dated 2014-04-23 and 0.4 dated 2014-04-25
Description: The BayesLogit package does posterior simulation for binomial and
multinomial logistic regression using the Polya-Gamma latent variable
technique. This method is fully automatic, exact, and fast. A routine to
efficiently sample from the Polya-Gamma class of distributions is included.
Author: Nicholas G. Polson, James G. Scott, and Jesse Windle
Maintainer: Jesse Windle
BayesLogit-0.3/BayesLogit/src/InvertY2.cpp |only
BayesLogit-0.3/BayesLogit/src/InvertY2.h |only
BayesLogit-0.4/BayesLogit/DESCRIPTION | 6 ++--
BayesLogit-0.4/BayesLogit/MD5 | 18 ++++++--------
BayesLogit-0.4/BayesLogit/man/rain.Rd | 2 -
BayesLogit-0.4/BayesLogit/man/rks.Rd | 4 +--
BayesLogit-0.4/BayesLogit/man/rpg.Rd | 29 ++++++++++++------------
BayesLogit-0.4/BayesLogit/src/InvertY.cpp | 2 -
BayesLogit-0.4/BayesLogit/src/Makevars | 2 -
BayesLogit-0.4/BayesLogit/src/Matrix.h | 2 -
BayesLogit-0.4/BayesLogit/src/PolyaGammaAlt.cpp | 14 +++++------
11 files changed, 39 insertions(+), 40 deletions(-)
Title: Statistics with Interactive R Learning
Diff between swirl versions 2.2.0 dated 2014-03-25 and 2.2.5 dated 2014-04-25
Description: swirl turns the R console into an interactive learning
environment. Users receive immediate feedback as they are guided through
self-paced lessons in data science and R programming.
Author: Nick Carchedi [aut, cre],
Bill Bauer [aut],
Gina Grdina [aut],
Sean Kross [aut]
Maintainer: Nick Carchedi
DESCRIPTION | 13 +-
MD5 | 24 ++---
NAMESPACE | 1
R/answerTests.R | 4
R/courseraCheck.R | 219 +++++++++++++++++++++++++++++++---------------
R/install_course.R | 31 +++++-
R/menu.R | 27 ++++-
R/parse_content.R | 6 +
R/swirl.R | 38 ++++++-
R/utilities.R | 2
R/zzz.R |only
README.md | 1
man/install_course_zip.Rd | 10 +-
man/main.Rd |only
14 files changed, 269 insertions(+), 107 deletions(-)
Title: Fisher-Wright Population Simulation
Diff between fwsim versions 0.3 dated 2014-04-07 and 0.3.1 dated 2014-04-25
Description: Simulates a population under the Fisher-Wright model with a one-step neutral mutation process (stepwise mutation model, logistic mutation model and exponential mutation model supported). The population sizes are random Poisson distributed and different kinds of population growth are supported. For the stepwise mutation model, it is possible to specify locus and direction specific mutation rate (in terms of upwards and downwards mutation rate). Intermediate generations can be saved in order to study e.g. drift.
Author: Mikkel Meyer Andersen and Poul Svante Eriksen
Maintainer: Mikkel Meyer Andersen
DESCRIPTION | 9 +++++----
MD5 | 8 +++++---
NEWS | 3 +++
src/Makevars |only
src/Makevars.win |only
src/common.h | 14 +++++++++++---
6 files changed, 24 insertions(+), 10 deletions(-)
Title: Dandelion Plot for R-mode Exploratory Factor Analysis
Diff between DandEFA versions 1.4 dated 2013-08-20 and 1.5 dated 2014-04-25
Description: This package contains the function used to create the Dandelion Plot. Dandelion Plot is a visualization method for R-mode Exploratory Factor Analysis
Author: Artur Manukyan, Ahmet Sedef, Erhan Cene, Ibrahim Demir (Advisor)
Maintainer: Artur Manukyan
DESCRIPTION | 10 +++---
MD5 | 8 ++---
R/dandelion.R | 82 ++++++++++++++++++++++++++++---------------------------
man/dandelion.Rd | 14 ++++++---
man/factload.Rd | 2 -
5 files changed, 61 insertions(+), 55 deletions(-)
Title: Multivariate Normal and t Distributions
Diff between mvtnorm versions 0.9-9999 dated 2014-04-17 and 0.9-99991 dated 2014-04-25
Description: Computes multivariate normal and t probabilities, quantiles,
random deviates and densities.
Author: Alan Genz, Frank Bretz, Tetsuhisa Miwa, Xuefei Mi, Friedrich Leisch,
Fabian Scheipl, Bjoern Bornkamp, Torsten Hothorn
Maintainer: Torsten Hothorn
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
R/mvnorm.R | 4 ++--
build/vignette.rds |binary
inst/NEWS | 12 ++++++++++--
inst/doc/MVT_Rnews.pdf |binary
tests/bugfix-tests.R | 22 ++++++++++++++++++++++
tests/bugfix-tests.Rout.save | 29 +++++++++++++++++++++++++++--
8 files changed, 72 insertions(+), 17 deletions(-)
Title: An R SVG graphics device.
Diff between RSvgDevice versions 0.6.4.3 dated 2013-07-02 and 0.6.4.4 dated 2014-04-25
Description: A graphics device for R that uses the w3.org xml standard
for Scalable Vector Graphics.
Author: T Jake Luciani
Maintainer: Matthieu Decorde
DESCRIPTION | 9 ++++-----
MD5 | 4 ++--
src/devSVG.c | 2 +-
3 files changed, 7 insertions(+), 8 deletions(-)
Title: Miscellaneous functions for finance / credit risk analysts
Diff between optiRum versions 0.32 dated 2014-04-04 and 0.33 dated 2014-04-25
Description: This packages fills the gaps credit analysts and loan modellers at
Optimum Credit identify in the existing R code body.
It allows for the production of documentation with less coding,
replicates a number of Microsoft Excel functions useful for
modelling loans (without rounding), and other helpful functions
for producing charts and tables. It also has some additional scales for
use, including a GBP scale
Author: Stephanie Locke [aut, cre]
Maintainer: Stephanie Locke
optiRum-0.32/optiRum/tests/testthat/figure |only
optiRum-0.32/optiRum/tests/testthat/tempunnamed-chunk-2.pdf |only
optiRum-0.32/optiRum/tests/testthat/unnamed-chunk-2.pdf |only
optiRum-0.33/optiRum/DESCRIPTION | 9 +-
optiRum-0.33/optiRum/MD5 | 31 +++++----
optiRum-0.33/optiRum/NAMESPACE | 3
optiRum-0.33/optiRum/NEWS | 38 ++++++------
optiRum-0.33/optiRum/R/CJ.dt.R |only
optiRum-0.33/optiRum/R/convertToXML.R |only
optiRum-0.33/optiRum/R/multiplot.R | 3
optiRum-0.33/optiRum/R/optiRum-package.r | 12 ++-
optiRum-0.33/optiRum/README.md |only
optiRum-0.33/optiRum/man/CJ.dt.Rd |only
optiRum-0.33/optiRum/man/convertToXML.Rd |only
optiRum-0.33/optiRum/man/generatePDF.Rd | 3
optiRum-0.33/optiRum/man/multiplot.Rd | 3
optiRum-0.33/optiRum/man/optiRum.Rd | 10 ++-
optiRum-0.33/optiRum/man/sanitise.Rd | 3
optiRum-0.33/optiRum/tests/testthat/datatabletest.pdf |binary
optiRum-0.33/optiRum/tests/testthat/test-CJ.dt.R |only
optiRum-0.33/optiRum/tests/testthat/test-convertToXML.R |only
21 files changed, 73 insertions(+), 42 deletions(-)
Title: Flux rate calculation from dynamic closed chamber measurements
Diff between flux versions 0.2-2 dated 2013-10-02 and 0.3-0 dated 2014-04-25
Description: Functions for the calculation of greenhouse gas flux rates
from closed chamber concentration measurements. The package follows
a modular concept: Fluxes can be calculated in just two simple steps
or in several steps if more control in details is wanted. Additionally
plot and preparation functions as well as functions for modelling
gpp and reco are provided.
Author: Gerald Jurasinski, Franziska Koebsch, Anke Guenther, Sascha Beetz
Maintainer: Gerald Jurasinski
DESCRIPTION | 10 ++---
MD5 | 52 ++++++++++++++++++++---------
NAMESPACE | 9 +++--
R/budget.gpp.R |only
R/budget.ie.R |only
R/budget.reco.R |only
R/checkm.R |only
R/gpp.R | 54 ++++++++++++++----------------
R/gpp.bulk.R |only
R/gpp2.R |only
R/lips.R | 17 +++++++--
R/modjust.R |only
R/plot.gpp.R | 12 +++---
R/plot.reco.R | 2 +
R/reco.R | 2 -
R/reco.bulk.R |only
R/round.POSIXct.R |only
R/round.POSIXlt.R |only
R/tbl8.R |only
data/amc.rda |only
data/amd.rda |only
inst/ChangeLog | 37 ++++++++++++++++++++
man/amc.Rd |only
man/amd.Rd |only
man/auc.Rd | 20 +++++------
man/budget.ie.Rd |only
man/budget.reco.Rd |only
man/checkm.Rd |only
man/flux-package.Rd | 19 +++++++---
man/gpp.Rd | 90 ++++++++++++++++++++++++++++++++++-----------------
man/inspect.Rd | 1
man/lips.Rd | 4 +-
man/modjust.Rd |only
man/plot.reco.Rd | 2 -
man/reco.bulk.Rd |only
man/round.POSIXlt.Rd |only
man/tbl8.Rd |only
man/tt.pre.Rd | 9 +++--
38 files changed, 229 insertions(+), 111 deletions(-)
Title: Denoising and clustering for dynamical image sequence (2D or
3D)+T
Diff between DynClust versions 3.12 dated 2014-02-28 and 3.13 dated 2014-04-25
Description: DynClust is a two-stage procedure for the denoising and clustering of stack of noisy images acquired over time. Clustering only assumes that the data contain an unknown but small number of dynamic features. The method first denoises the signals using local spatial and full temporal information. The clustering step uses the previous output to aggregate voxels based on the knowledge of their spatial neighborhood. Both steps use a single keytool based on the statistical comparison of the difference of two signals with the null signal. No assumption is therefore required on the shape of the signals. The data are assumed to be normally distributed (or at least follow a symmetric distribution) with a known constant variance. Working pixelwise, the method can be time-consuming depending on the size of the data-array but harnesses the power of multicore cpus.
Author: Yves Rozenholc (MAP5, Univ. Paris Descartes), Christophe Pouzat (MAP5, Univ. Paris Descartes) and Tiffany Lieury (Cerebral Physiology lab, Univ. Paris Descartes)
Maintainer: Yves Rozenholc
DESCRIPTION | 6 +--
MD5 | 8 ++--
R/MultiTestH0.R | 91 ++++++++++---------------------------------------
R/RunClustering.R | 4 +-
data/adu340_4small.rda |binary
5 files changed, 29 insertions(+), 80 deletions(-)
Title: Analysis of habitat selection by animals
Diff between adehabitat versions 1.8.13 dated 2014-04-24 and 1.8.14 dated 2014-04-25
Description: A collection of tools for the analysis of habitat selection by animals
Author: Clement Calenge, contributions from Mathieu Basille, Stephane Dray and Scott Fortmann-Roe
Maintainer: Clement Calenge
DESCRIPTION | 8 ++++----
MD5 | 4 ++--
src/tests.c | 2 +-
3 files changed, 7 insertions(+), 7 deletions(-)
Title: Calibration functions for analytical chemistry
Diff between chemCal versions 0.1-29 dated 2013-06-14 and 0.1-34 dated 2014-04-25
Description: chemCal provides simple functions for plotting linear
calibration functions and estimating standard errors for measurements
according to the Handbook of Chemometrics and Qualimetrics: Part A
by Massart et al. There are also functions estimating the limit
of detection (LOD) and limit of quantification (LOQ).
The functions work on model objects from - optionally weighted - linear
regression (lm) or robust linear regression (rlm from the MASS package).
Author: Johannes Ranke
Maintainer: Johannes Ranke
chemCal-0.1-29/chemCal/INDEX |only
chemCal-0.1-29/chemCal/vignettes/Makefile |only
chemCal-0.1-29/chemCal/vignettes/chemCal-001.eps |only
chemCal-0.1-29/chemCal/vignettes/chemCal-001.pdf |only
chemCal-0.1-29/chemCal/vignettes/chemCal-002.eps |only
chemCal-0.1-29/chemCal/vignettes/chemCal-002.pdf |only
chemCal-0.1-29/chemCal/vignettes/chemCal.tex |only
chemCal-0.1-34/chemCal/DESCRIPTION | 21 +++++++---------
chemCal-0.1-34/chemCal/MD5 | 29 +++++++++--------------
chemCal-0.1-34/chemCal/NAMESPACE | 7 +++--
chemCal-0.1-34/chemCal/R/lod.R | 10 ++++---
chemCal-0.1-34/chemCal/R/loq.R | 11 ++++----
chemCal-0.1-34/chemCal/build |only
chemCal-0.1-34/chemCal/data/din32645.rda |binary
chemCal-0.1-34/chemCal/inst/doc/chemCal.R |only
chemCal-0.1-34/chemCal/inst/doc/chemCal.pdf |binary
chemCal-0.1-34/chemCal/man/lod.Rd | 9 +++++--
chemCal-0.1-34/chemCal/man/loq.Rd | 7 ++++-
chemCal-0.1-34/chemCal/tests/din32645.Rout.save | 12 +++++----
chemCal-0.1-34/chemCal/tests/massart97.Rout.save | 22 +++++++++--------
20 files changed, 70 insertions(+), 58 deletions(-)