Tue, 10 Mar 2015

Package colorspace updated to version 1.2-6 with previous version 1.2-5 dated 2015-03-03

Title: Color Space Manipulation
Description: Carries out mapping between assorted color spaces including RGB, HSV, HLS, CIEXYZ, CIELUV, HCL (polar CIELUV), CIELAB and polar CIELAB. Qualitative, sequential, and diverging color palettes based on HCL colors are provided.
Author: Ross Ihaka [aut], Paul Murrell [aut], Kurt Hornik [aut], Jason C. Fisher [aut], Achim Zeileis [aut, cre]
Maintainer: Achim Zeileis

Diff between colorspace versions 1.2-5 dated 2015-03-03 and 1.2-6 dated 2015-03-10

 DESCRIPTION             |   12 -
 MD5                     |   10 -
 NAMESPACE               |    1 
 NEWS                    |    6 
 R/choose_palette.R      |  460 ++++++++++++++++++++++++------------------------
 inst/doc/hcl-colors.pdf |binary
 6 files changed, 247 insertions(+), 242 deletions(-)

More information about colorspace at CRAN
Permanent link

New package gsheet with initial version 0.1.0
Package: gsheet
Type: Package
Title: Download Google Sheets Using Just the URL
Version: 0.1.0
Date: 2015-03-09
Authors@R: person("Max", "Conway", email = "conway.max1@gmail.com", role = c("aut", "cre"))
Description: Simple package to download Google Sheets using just the sharing link. Spreadsheets can be downloaded as a data frame, or as plain text to parse manually. Google Sheets is the new name for Google Docs Spreadsheets.
License: GPL-3
URL: https://github.com/maxconway/gsheet
BugReports: https://github.com/maxconway/gsheet/issues
Imports: dplyr, rvest, stringr
Suggests: testthat
Packaged: 2015-03-10 12:18:03 UTC; mjc233
Author: Max Conway [aut, cre]
Maintainer: Max Conway
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-10 23:13:49

More information about gsheet at CRAN
Permanent link

Package RVFam updated to version 1.1 with previous version 1.0 dated 2015-02-19

Title: Rare Variants Association Analyses with Family Data
Description: The RVFam package provides functions to perform single SNP association analyses and gene-based tests for continuous, binary and survival traits against sequencing data (e.g. exome chip) using family data.
Author: Ming-Huei Chen and Qiong Yang
Maintainer: Ming-Huei Chen

Diff between RVFam versions 1.0 dated 2015-02-19 and 1.1 dated 2015-03-10

 DESCRIPTION |    6 +++---
 MD5         |    4 ++--
 NAMESPACE   |    6 ++++--
 3 files changed, 9 insertions(+), 7 deletions(-)

More information about RVFam at CRAN
Permanent link

Package mixture updated to version 1.4 with previous version 1.3 dated 2015-01-02

Title: Mixture Models for Clustering and Classification
Description: An implementation of all 14 Gaussian parsimonious clustering models (GPCMs) for model-based clustering and model-based classification.
Author: Ryan P. Browne, Aisha ElSherbiny and Paul D. McNicholas
Maintainer: Ryan Browne

Diff between mixture versions 1.3 dated 2015-01-02 and 1.4 dated 2015-03-10

 DESCRIPTION     |    9 ++-
 MD5             |   14 +++---
 R/mixture.R     |   68 ++++++++++++++++++++---------
 man/gpcm.Rd     |    2 
 man/mixture.Rd  |    4 -
 src/Makevars    |    2 
 src/functions.h |    2 
 src/mixture.c   |  129 +++++++++++++++++++++++++++++++++++++-------------------
 8 files changed, 152 insertions(+), 78 deletions(-)

More information about mixture at CRAN
Permanent link

Package midasr updated to version 0.4 with previous version 0.3 dated 2014-04-30

Title: Mixed Data Sampling Regression
Description: Methods and tools for mixed frequency time series data analysis. Allows estimation, model selection and forecasting for MIDAS regressions.
Author: Virmantas Kvedaras , Vaidotas Zemlys
Maintainer: Vaidotas Zemlys

Diff between midasr versions 0.3 dated 2014-04-30 and 0.4 dated 2015-03-10

 midasr-0.3/midasr/man/AICc.Rd                  |only
 midasr-0.3/midasr/man/almonp.gradient.Rd       |only
 midasr-0.3/midasr/man/checkARstar.Rd           |only
 midasr-0.3/midasr/man/gompertzp.gradient.Rd    |only
 midasr-0.3/midasr/man/hAh.test.Rd              |only
 midasr-0.3/midasr/man/hAhr.test.Rd             |only
 midasr-0.3/midasr/man/harstep.gradient.Rd      |only
 midasr-0.3/midasr/man/imidas_r.imidas_r.Rd     |only
 midasr-0.3/midasr/man/lcauchyp.gradient.Rd     |only
 midasr-0.3/midasr/man/midas.auto.sim.Rd        |only
 midasr-0.3/midasr/man/midas.sim.Rd             |only
 midasr-0.3/midasr/man/midas_coef.Rd            |only
 midasr-0.3/midasr/man/midas_r.midas_r.Rd       |only
 midasr-0.3/midasr/man/mls_coef.Rd              |only
 midasr-0.3/midasr/man/nakagamip.gradient.Rd    |only
 midasr-0.3/midasr/man/nbeta.gradient.Rd        |only
 midasr-0.3/midasr/man/nbetaMT.gradient.Rd      |only
 midasr-0.3/midasr/man/nealmon.gradient.Rd      |only
 midasr-0.3/midasr/man/polystep.gradient.Rd     |only
 midasr-0.3/midasr/man/prepmidas_r.Rd           |only
 midasr-0.3/midasr/man/simplearma.sim.Rd        |only
 midasr-0.3/midasr/man/weight_coef.Rd           |only
 midasr-0.3/midasr/man/weight_names.Rd          |only
 midasr-0.3/midasr/man/weight_param.Rd          |only
 midasr-0.4/midasr/DESCRIPTION                  |   10 
 midasr-0.4/midasr/LICENCE                      |    4 
 midasr-0.4/midasr/MD5                          |  169 +++-----
 midasr-0.4/midasr/NAMESPACE                    |   51 +-
 midasr-0.4/midasr/NEWS                         |   22 +
 midasr-0.4/midasr/R/imidasreg.R                |   76 +--
 midasr-0.4/midasr/R/lagspec.R                  |   28 -
 midasr-0.4/midasr/R/midas_r_methods.R          |  420 +++++++++++++-------
 midasr-0.4/midasr/R/midasr-package.R           |    9 
 midasr-0.4/midasr/R/midasreg.R                 |  512 +++++++++++++++----------
 midasr-0.4/midasr/R/modsel.R                   |  150 +++----
 midasr-0.4/midasr/R/nonparametric.R            |   93 +++-
 midasr-0.4/midasr/R/simulate.R                 |  252 ++++++++----
 midasr-0.4/midasr/R/tests.R                    |   96 ++--
 midasr-0.4/midasr/demo/RV.R                    |   26 -
 midasr-0.4/midasr/demo/autoreg.R               |   19 
 midasr-0.4/midasr/demo/imidasr.R               |   17 
 midasr-0.4/midasr/demo/logRV.R                 |   28 -
 midasr-0.4/midasr/demo/okun.R                  |   24 -
 midasr-0.4/midasr/man/USpayems.Rd              |   10 
 midasr-0.4/midasr/man/USqgdp.Rd                |   10 
 midasr-0.4/midasr/man/USrealgdp.Rd             |    8 
 midasr-0.4/midasr/man/USunempr.Rd              |    8 
 midasr-0.4/midasr/man/agk.test.Rd              |   12 
 midasr-0.4/midasr/man/almonp.Rd                |    8 
 midasr-0.4/midasr/man/almonp_gradient.Rd       |only
 midasr-0.4/midasr/man/amidas_table.Rd          |   75 +--
 midasr-0.4/midasr/man/amweights.Rd             |   26 -
 midasr-0.4/midasr/man/average_forecast.Rd      |   47 --
 midasr-0.4/midasr/man/check_mixfreq.Rd         |   15 
 midasr-0.4/midasr/man/coef.midas_r.Rd          |only
 midasr-0.4/midasr/man/deriv_tests.Rd           |   15 
 midasr-0.4/midasr/man/deviance.midas_r.Rd      |    6 
 midasr-0.4/midasr/man/dmls.Rd                  |   11 
 midasr-0.4/midasr/man/expand_amidas.Rd         |   29 -
 midasr-0.4/midasr/man/expand_weights_lags.Rd   |   24 -
 midasr-0.4/midasr/man/fmls.Rd                  |   16 
 midasr-0.4/midasr/man/forecast.midas_r.Rd      |   66 ++-
 midasr-0.4/midasr/man/get_estimation_sample.Rd |    4 
 midasr-0.4/midasr/man/gompertzp.Rd             |   15 
 midasr-0.4/midasr/man/gompertzp_gradient.Rd    |only
 midasr-0.4/midasr/man/hAh_test.Rd              |only
 midasr-0.4/midasr/man/hAhr_test.Rd             |only
 midasr-0.4/midasr/man/harstep.Rd               |   16 
 midasr-0.4/midasr/man/harstep_gradient.Rd      |only
 midasr-0.4/midasr/man/hf_lags_table.Rd         |   58 --
 midasr-0.4/midasr/man/imidas_r.Rd              |  130 ++----
 midasr-0.4/midasr/man/lcauchyp.Rd              |   15 
 midasr-0.4/midasr/man/lcauchyp_gradient.Rd     |only
 midasr-0.4/midasr/man/lf_lags_table.Rd         |   54 --
 midasr-0.4/midasr/man/lws_table-add.Rd         |   14 
 midasr-0.4/midasr/man/midas_auto_sim.Rd        |only
 midasr-0.4/midasr/man/midas_r.Rd               |  151 +++----
 midasr-0.4/midasr/man/midas_r.fit.Rd           |    6 
 midasr-0.4/midasr/man/midas_r_ic_table.Rd      |   56 --
 midasr-0.4/midasr/man/midas_r_np.Rd            |   21 -
 midasr-0.4/midasr/man/midas_r_simple.Rd        |   24 -
 midasr-0.4/midasr/man/midas_sim.Rd             |only
 midasr-0.4/midasr/man/midas_u.Rd               |   50 --
 midasr-0.4/midasr/man/midasr-package.Rd        |   14 
 midasr-0.4/midasr/man/mls.Rd                   |   15 
 midasr-0.4/midasr/man/modsel.Rd                |   29 -
 midasr-0.4/midasr/man/nakagamip.Rd             |   15 
 midasr-0.4/midasr/man/nakagamip_gradient.Rd    |only
 midasr-0.4/midasr/man/nbeta.Rd                 |   14 
 midasr-0.4/midasr/man/nbetaMT.Rd               |   16 
 midasr-0.4/midasr/man/nbetaMT_gradient.Rd      |only
 midasr-0.4/midasr/man/nbeta_gradient.Rd        |only
 midasr-0.4/midasr/man/nealmon.Rd               |   18 
 midasr-0.4/midasr/man/nealmon_gradient.Rd      |only
 midasr-0.4/midasr/man/oos_prec.Rd              |    9 
 midasr-0.4/midasr/man/plot_midas_coef.Rd       |only
 midasr-0.4/midasr/man/polystep.Rd              |   11 
 midasr-0.4/midasr/man/polystep_gradient.Rd     |only
 midasr-0.4/midasr/man/predict.midas_r.Rd       |   26 -
 midasr-0.4/midasr/man/prep_hAh.Rd              |   12 
 midasr-0.4/midasr/man/rvsp500.Rd               |    9 
 midasr-0.4/midasr/man/select_and_forecast.Rd   |   54 +-
 midasr-0.4/midasr/man/simulate.midas_r.Rd      |only
 midasr-0.4/midasr/man/split_data.Rd            |   22 -
 midasr-0.4/midasr/man/update_weights.Rd        |only
 midasr-0.4/midasr/man/weights_table.Rd         |   41 --
 106 files changed, 1759 insertions(+), 1552 deletions(-)

More information about midasr at CRAN
Permanent link

Package DiceOptim updated to version 1.5 with previous version 1.4 dated 2013-04-04

Title: Kriging-Based Optimization for Computer Experiments
Description: Expected Improvement. EGO algorithm. Multipoint EI and parallelized versions of EGO. Criteria and algorithms for Noisy Kriging-based Optimization , including AEI, AKG, EQI, and EI with plugin.
Author: D. Ginsbourger, V. Picheny, O. Roustant, with contributions by C. Chevalier, S. Marmin, and T. Wagner
Maintainer: D. Ginsbourger

Diff between DiceOptim versions 1.4 dated 2013-04-04 and 1.5 dated 2015-03-10

 DiceOptim-1.4/DiceOptim/R/max_qEI.CL.R               |only
 DiceOptim-1.4/DiceOptim/man/CL.nsteps.Rd             |only
 DiceOptim-1.4/DiceOptim/man/max_qEI.CL.Rd            |only
 DiceOptim-1.5/DiceOptim/DESCRIPTION                  |   19 
 DiceOptim-1.5/DiceOptim/MD5                          |   73 +--
 DiceOptim-1.5/DiceOptim/NAMESPACE                    |    4 
 DiceOptim-1.5/DiceOptim/R/EI.R                       |   13 
 DiceOptim-1.5/DiceOptim/R/EI.grad.R                  |   13 
 DiceOptim-1.5/DiceOptim/R/max_EI.R                   |    4 
 DiceOptim-1.5/DiceOptim/R/max_qEI.R                  |only
 DiceOptim-1.5/DiceOptim/R/qEGO.nsteps.R              |only
 DiceOptim-1.5/DiceOptim/R/qEI.R                      |  176 ++++++-
 DiceOptim-1.5/DiceOptim/R/qEI.grad.R                 |only
 DiceOptim-1.5/DiceOptim/R/sampleFromEI.R             |only
 DiceOptim-1.5/DiceOptim/man/AEI.Rd                   |    3 
 DiceOptim-1.5/DiceOptim/man/AEI.grad.Rd              |    1 
 DiceOptim-1.5/DiceOptim/man/AKG.Rd                   |    1 
 DiceOptim-1.5/DiceOptim/man/AKG.grad.Rd              |    4 
 DiceOptim-1.5/DiceOptim/man/DiceOptim-package.Rd     |   33 -
 DiceOptim-1.5/DiceOptim/man/EGO.nsteps.Rd            |  446 +++++++++----------
 DiceOptim-1.5/DiceOptim/man/EI.Rd                    |   10 
 DiceOptim-1.5/DiceOptim/man/EI.grad.Rd               |    6 
 DiceOptim-1.5/DiceOptim/man/EQI.Rd                   |    1 
 DiceOptim-1.5/DiceOptim/man/EQI.grad.Rd              |    7 
 DiceOptim-1.5/DiceOptim/man/branin2.Rd               |    2 
 DiceOptim-1.5/DiceOptim/man/goldsteinprice.Rd        |    1 
 DiceOptim-1.5/DiceOptim/man/hartman4.Rd              |    2 
 DiceOptim-1.5/DiceOptim/man/kriging.quantile.Rd      |    1 
 DiceOptim-1.5/DiceOptim/man/kriging.quantile.grad.Rd |    5 
 DiceOptim-1.5/DiceOptim/man/max_AEI.Rd               |    4 
 DiceOptim-1.5/DiceOptim/man/max_AKG.Rd               |    1 
 DiceOptim-1.5/DiceOptim/man/max_EI.Rd                |    5 
 DiceOptim-1.5/DiceOptim/man/max_EQI.Rd               |    4 
 DiceOptim-1.5/DiceOptim/man/max_qEI.Rd               |only
 DiceOptim-1.5/DiceOptim/man/min_quantile.Rd          |    1 
 DiceOptim-1.5/DiceOptim/man/noisy.optimizer.Rd       |    5 
 DiceOptim-1.5/DiceOptim/man/qEGO.nsteps.Rd           |only
 DiceOptim-1.5/DiceOptim/man/qEI.Rd                   |  164 +++---
 DiceOptim-1.5/DiceOptim/man/qEI.grad.Rd              |only
 DiceOptim-1.5/DiceOptim/man/rosenbrock4.Rd           |    2 
 DiceOptim-1.5/DiceOptim/man/sampleFromEI.Rd          |only
 DiceOptim-1.5/DiceOptim/man/sphere6.Rd               |    2 
 DiceOptim-1.5/DiceOptim/man/update_km_noisyEGO.Rd    |    4 
 43 files changed, 593 insertions(+), 424 deletions(-)

More information about DiceOptim at CRAN
Permanent link

Package cit updated to version 1.4 with previous version 1.3 dated 2014-12-10

Title: Causal Inference Test
Description: A formal statistical hypothesis test, resulting in a p-value, is provided to quantify uncertainty in a causal inference pertaining to a measured factor, e.g. a molecular species, which potentially mediates a known causal association between a locus and a quantitative trait. The test is applicable to data that includes genotype (discrete), possible causal mediator such as gene expression (continuous) and an outcome of interest (continuous).
Author: Joshua Millstein
Maintainer: Joshua Millstein

Diff between cit versions 1.3 dated 2014-12-10 and 1.4 dated 2015-03-10

 cit-1.3/cit/src/cit_v6.cpp     |only
 cit-1.4/cit/DESCRIPTION        |   10 +++++-----
 cit-1.4/cit/MD5                |    8 ++++----
 cit-1.4/cit/man/cit-package.Rd |    2 +-
 cit-1.4/cit/src/Makevars       |    2 +-
 cit-1.4/cit/src/cit_v7.cpp     |only
 6 files changed, 11 insertions(+), 11 deletions(-)

More information about cit at CRAN
Permanent link

Package binr updated to version 1.1 with previous version 1.0 dated 2014-07-03

Title: Cut Numeric Values into Evenly Distributed Groups
Description: Implementation of algorithms for cutting numerical values exhibiting a potentially highly skewed distribution into evenly distributed groups (bins). This functionality can be applied for binning discrete values, such as counts, as well as for discretization of continuous values, for example, during generation of features used in machine learning algorithms.
Author: Sergei Izrailev
Maintainer: Sergei Izrailev

Diff between binr versions 1.0 dated 2014-07-03 and 1.1 dated 2015-03-10

 DESCRIPTION           |   16 ++++++++--------
 MD5                   |   25 +++++++++++++------------
 NAMESPACE             |    2 +-
 NEWS                  |    8 ++++++++
 R/binr-package.R      |    6 +++---
 R/bins.R              |   17 +++++++++++++----
 README.md             |    2 ++
 inst/COPYRIGHTS       |    1 +
 inst/binr_1.1.pdf     |only
 man/binr.Rd           |    9 +++++----
 man/bins.Rd           |    3 ++-
 man/bins.greedy.Rd    |   15 ++++++++-------
 man/bins.optimize.Rd  |    7 ++++---
 man/bins.quantiles.Rd |    3 ++-
 14 files changed, 70 insertions(+), 44 deletions(-)

More information about binr at CRAN
Permanent link

Package qgraph updated to version 1.3.1 with previous version 1.3 dated 2014-12-02

Title: Graph Plotting Methods, Psychometric Data Visualization and Graphical Model Estimation
Description: The qgraph package can be used to visualize data as networks as well as provides an interface for visualizing weighted graphical models.
Author: Sacha Epskamp, Giulio Costantini, Angelique O. J. Cramer, Lourens J. Waldorp, Verena D. Schmittmann and Denny Borsboom
Maintainer: Sacha Epskamp

Diff between qgraph versions 1.3 dated 2014-12-02 and 1.3.1 dated 2015-03-10

 qgraph-1.3.1/qgraph/DESCRIPTION          |   15 
 qgraph-1.3.1/qgraph/MD5                  |   48 
 qgraph-1.3.1/qgraph/NAMESPACE            |    4 
 qgraph-1.3.1/qgraph/NEWS                 |  815 +++++-----
 qgraph-1.3.1/qgraph/R/PLOT.R             | 2376 +++++++++++++++----------------
 qgraph-1.3.1/qgraph/R/addTitle.R         |    2 
 qgraph-1.3.1/qgraph/R/averageLayout.R    |    6 
 qgraph-1.3.1/qgraph/R/centrality.R       |    2 
 qgraph-1.3.1/qgraph/R/centralityTable.R  |    2 
 qgraph-1.3.1/qgraph/R/clusteringPlot.R   |    3 
 qgraph-1.3.1/qgraph/R/clusteringTable.R  |    2 
 qgraph-1.3.1/qgraph/R/cor_auto.R         |   12 
 qgraph-1.3.1/qgraph/R/glasso_methods.R   |   19 
 qgraph-1.3.1/qgraph/R/qgraph.R           |   18 
 qgraph-1.3.1/qgraph/R/qgraph.panel.R     |  118 -
 qgraph-1.3.1/qgraph/R/qgraphAnnotate.R   |    6 
 qgraph-1.3.1/qgraph/R/qgraph_loadings.R  |  640 ++++----
 qgraph-1.3.1/qgraph/R/qgraph_mixed.R     |only
 qgraph-1.3.1/qgraph/R/qgraph_svg.R       |  358 ++--
 qgraph-1.3.1/qgraph/R/scale2.R           |only
 qgraph-1.3.1/qgraph/README               |    8 
 qgraph-1.3.1/qgraph/man/EBICglasso.Rd    |    6 
 qgraph-1.3.1/qgraph/man/averageLayout.Rd |    5 
 qgraph-1.3.1/qgraph/man/cor_auto.Rd      |    3 
 qgraph-1.3.1/qgraph/man/qgraph.Rd        |    1 
 qgraph-1.3.1/qgraph/man/qgraphMixed.Rd   |only
 qgraph-1.3/qgraph/man/qgraph-package.Rd  |only
 27 files changed, 2266 insertions(+), 2203 deletions(-)

More information about qgraph at CRAN
Permanent link

Package pheatmap updated to version 1.0.2 with previous version 0.7.7 dated 2013-09-19

Title: Pretty Heatmaps
Description: A grid based implementation of heatmaps that offers more control over heatmap dimensions and appearance.
Author: Raivo Kolde
Maintainer: Raivo Kolde

Diff between pheatmap versions 0.7.7 dated 2013-09-19 and 1.0.2 dated 2015-03-10

 DESCRIPTION             |   19 
 MD5                     |   14 
 NAMESPACE               |    4 
 NEWS                    |   38 +
 R/pheatmap-package.r    |   10 
 R/pheatmap.r            | 1390 ++++++++++++++++++++++++++++--------------------
 man/pheatmap-package.Rd |   10 
 man/pheatmap.Rd         |  315 +++++-----
 8 files changed, 1049 insertions(+), 751 deletions(-)

More information about pheatmap at CRAN
Permanent link

Package orca updated to version 1.1 with previous version 1.0 dated 2014-03-29

Title: Computation of Graphlet Orbit Counts in Sparse Graphs
Description: Implements orbit counting using a fast combinatorial approach. Counts orbits of nodes and edges from edge matrix or data frame, or a graph object from the graph package.
Author: Tomaz Hocevar, Janez Demsar
Maintainer: Janez Demsar

Diff between orca versions 1.0 dated 2014-03-29 and 1.1 dated 2015-03-10

 DESCRIPTION                      |   16 
 MD5                              |   24 
 R/orca.R                         |   26 
 data/petersen.txt.gz             |only
 data/usastates.txt.gz            |only
 data/yeast.txt.gz                |only
 man/karate.Rd                    |    2 
 man/orca.Rd                      |   31 
 man/petersen.Rd                  |only
 man/usastates.Rd                 |only
 man/yeast.Rd                     |only
 src/count.cpp                    |  410 +++++------
 tests/karate-as-matrix.Rout.save |  113 +--
 tests/karate.Rout.save           | 1411 +++++++++++++++------------------------
 tests/permutation.R              |only
 tests/permutation.Rout.save      |only
 tests/symmetry.R                 |only
 tests/symmetry.Rout.save         |only
 18 files changed, 892 insertions(+), 1141 deletions(-)

More information about orca at CRAN
Permanent link

New package lmfor with initial version 1.1
Package: lmfor
Type: Package
Title: Functions for Forest Biometrics
Version: 1.1
Date: 2015-03-10
Author: Lauri Mehtatalo
Maintainer: Lauri Mehtatalo
Depends: stats4, nlme, MASS
Description: Functions related to forest biometrics, including illustrative graphics, numerical computation, modeling height-diameter relationships, prediction of tree volumes, and recovery of tree diameter distributions. Datasets on tree height-diameter relationship and light response of moss photosynthesis are included.
License: GPL-2
Packaged: 2015-03-10 14:50:03 UTC; lamehtat
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-10 17:47:31

More information about lmfor at CRAN
Permanent link

New package import with initial version 1.0.1
Package: import
Type: Package
Title: An Import Mechanism for R
Version: 1.0.1
Date: 2015-03-10
Author: Stefan Milton Bache
Maintainer: Stefan Milton Bache
Description: This is an alternative mechanism for importing objects from packages. The syntax allows for importing multiple objects from a package with a single command in an expressive way. The import package bridges some of the gap between using library (or require) and direct (single-object) imports. Furthermore the imported objects are not placed in the current environment.
License: MIT + file LICENSE
ByteCompile: TRUE
Packaged: 2015-03-10 14:53:33 UTC; shb
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-10 17:51:42

More information about import at CRAN
Permanent link

Package ChemoSpec updated to version 4.0-0 with previous version 3.0-1 dated 2015-01-21

Title: Exploratory Chemometrics for Spectroscopy
Description: A collection of functions for plotting spectra (NMR, IR, Raman) and carrying out various forms of top-down exploratory data analysis, such as HCA, PCA, model-based clustering and STOCSY analysis. Robust methods appropriate for this type of high-dimensional data are available. ChemoSpec is designed with metabolomics data sets in mind, where the samples fall into groups such as treatment and control. Graphical output is formatted consistently for publication quality plots. ChemoSpec is intended to be very user friendly and help you get usable results quickly. A vignette illustrating typical operations is available.
Author: Bryan A. Hanson DePauw University, Greencastle Indiana USA
Maintainer: Bryan A. Hanson

Diff between ChemoSpec versions 3.0-1 dated 2015-01-21 and 4.0-0 dated 2015-03-10

 ChemoSpec-3.0-1/ChemoSpec/R/LoopThruSpectra.R           |only
 ChemoSpec-3.0-1/ChemoSpec/R/aovPCA.R                    |only
 ChemoSpec-3.0-1/ChemoSpec/R/baselineSpec.R              |only
 ChemoSpec-3.0-1/ChemoSpec/R/binBuck.R                   |only
 ChemoSpec-3.0-1/ChemoSpec/R/calcSN.R                    |only
 ChemoSpec-3.0-1/ChemoSpec/R/classPCA.R                  |only
 ChemoSpec-3.0-1/ChemoSpec/R/findTMS.R                   |only
 ChemoSpec-3.0-1/ChemoSpec/R/pcaBoot.R                   |only
 ChemoSpec-3.0-1/ChemoSpec/R/readBrukerAscii.R           |only
 ChemoSpec-3.0-1/ChemoSpec/R/readBrukerTxt.R             |only
 ChemoSpec-3.0-1/ChemoSpec/R/robPCA.R                    |only
 ChemoSpec-3.0-1/ChemoSpec/R/specSurvey.R                |only
 ChemoSpec-3.0-1/ChemoSpec/data/CuticleIR.RData          |only
 ChemoSpec-3.0-1/ChemoSpec/man/CuticleIR.Rd              |only
 ChemoSpec-3.0-1/ChemoSpec/man/LoopThruSpectra.Rd        |only
 ChemoSpec-3.0-1/ChemoSpec/man/aovPCA.Rd                 |only
 ChemoSpec-3.0-1/ChemoSpec/man/baselineSpec.Rd           |only
 ChemoSpec-3.0-1/ChemoSpec/man/binBuck.Rd                |only
 ChemoSpec-3.0-1/ChemoSpec/man/calcSN.Rd                 |only
 ChemoSpec-3.0-1/ChemoSpec/man/classPCA.Rd               |only
 ChemoSpec-3.0-1/ChemoSpec/man/findTMS.Rd                |only
 ChemoSpec-3.0-1/ChemoSpec/man/pcaBoot.Rd                |only
 ChemoSpec-3.0-1/ChemoSpec/man/readBrukerTxt.Rd          |only
 ChemoSpec-3.0-1/ChemoSpec/man/robPCA.Rd                 |only
 ChemoSpec-3.0-1/ChemoSpec/man/specSurvey.Rd             |only
 ChemoSpec-4.0-0/ChemoSpec/DESCRIPTION                   |   19 
 ChemoSpec-4.0-0/ChemoSpec/MD5                           |  210 ++---
 ChemoSpec-4.0-0/ChemoSpec/NAMESPACE                     |  136 ++-
 ChemoSpec-4.0-0/ChemoSpec/NEWS                          |  639 +++++++---------
 ChemoSpec-4.0-0/ChemoSpec/R/aovPCAloadings.R            |    4 
 ChemoSpec-4.0-0/ChemoSpec/R/aovPCAscores.R              |    8 
 ChemoSpec-4.0-0/ChemoSpec/R/aov_pcaSpectra.R            |only
 ChemoSpec-4.0-0/ChemoSpec/R/avgFacLvls.R                |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/baselineSpectra.R           |only
 ChemoSpec-4.0-0/ChemoSpec/R/binSpectra.R                |only
 ChemoSpec-4.0-0/ChemoSpec/R/c_pcaSpectra.R              |only
 ChemoSpec-4.0-0/ChemoSpec/R/chooseLvls.R                |only
 ChemoSpec-4.0-0/ChemoSpec/R/clupaSpectra.R              |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/corSpectra.R                |only
 ChemoSpec-4.0-0/ChemoSpec/R/covSpectra.R                |only
 ChemoSpec-4.0-0/ChemoSpec/R/cv_pcaSpectra.R             |only
 ChemoSpec-4.0-0/ChemoSpec/R/evalClusters.R              |   20 
 ChemoSpec-4.0-0/ChemoSpec/R/files2SpectraObject.R       |  238 ++---
 ChemoSpec-4.0-0/ChemoSpec/R/getMaxCovByFreq.R           |only
 ChemoSpec-4.0-0/ChemoSpec/R/hcaSpectra.R                |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/hmapSpectra.R               |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/loopThruSpectra.R           |only
 ChemoSpec-4.0-0/ChemoSpec/R/mclust3D.R                  |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/mclust3dSpectra.R           |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/mclustSpectra.R             |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/plotSpectraJS.R             |only
 ChemoSpec-4.0-0/ChemoSpec/R/r_pcaSpectra.R              |only
 ChemoSpec-4.0-0/ChemoSpec/R/rowDist.R                   |   25 
 ChemoSpec-4.0-0/ChemoSpec/R/sampleDistSpectra.R         |only
 ChemoSpec-4.0-0/ChemoSpec/R/splitSpectraGroups.R        |    2 
 ChemoSpec-4.0-0/ChemoSpec/R/surveySpectra.R             |only
 ChemoSpec-4.0-0/ChemoSpec/build/vignette.rds            |binary
 ChemoSpec-4.0-0/ChemoSpec/data/alignMUD.RData           |only
 ChemoSpec-4.0-0/ChemoSpec/data/datalist                 |    4 
 ChemoSpec-4.0-0/ChemoSpec/data/metMUD1.RData            |only
 ChemoSpec-4.0-0/ChemoSpec/data/metMUD2.RData            |only
 ChemoSpec-4.0-0/ChemoSpec/inst/doc/ChemoSpec.R          |   19 
 ChemoSpec-4.0-0/ChemoSpec/inst/doc/ChemoSpec.Rnw        |   61 -
 ChemoSpec-4.0-0/ChemoSpec/inst/doc/ChemoSpec.pdf        |binary
 ChemoSpec-4.0-0/ChemoSpec/inst/extdata                  |only
 ChemoSpec-4.0-0/ChemoSpec/man/ChemoSpec-package.Rd      |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/MUD.Rd                    |only
 ChemoSpec-4.0-0/ChemoSpec/man/Spectra.Rd                |    2 
 ChemoSpec-4.0-0/ChemoSpec/man/SrE.IR.Rd                 |   13 
 ChemoSpec-4.0-0/ChemoSpec/man/aovPCAloadings.Rd         |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/aovPCAscores.Rd           |   14 
 ChemoSpec-4.0-0/ChemoSpec/man/aov_pcaSpectra.Rd         |only
 ChemoSpec-4.0-0/ChemoSpec/man/avgFacLvls.Rd             |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/baselineSpectra.Rd        |only
 ChemoSpec-4.0-0/ChemoSpec/man/binData.Rd                |    4 
 ChemoSpec-4.0-0/ChemoSpec/man/binSpectra.Rd             |only
 ChemoSpec-4.0-0/ChemoSpec/man/c_pcaSpectra.Rd           |only
 ChemoSpec-4.0-0/ChemoSpec/man/check4Gaps.Rd             |    9 
 ChemoSpec-4.0-0/ChemoSpec/man/chkSpectra.Rd             |   20 
 ChemoSpec-4.0-0/ChemoSpec/man/chooseLvls.Rd             |only
 ChemoSpec-4.0-0/ChemoSpec/man/clupaSpectra.Rd           |   26 
 ChemoSpec-4.0-0/ChemoSpec/man/colLeaf.Rd                |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/colorSymbol.Rd            |    2 
 ChemoSpec-4.0-0/ChemoSpec/man/conColScheme.Rd           |   14 
 ChemoSpec-4.0-0/ChemoSpec/man/coordProjCS.Rd            |    2 
 ChemoSpec-4.0-0/ChemoSpec/man/corSpectra.Rd             |only
 ChemoSpec-4.0-0/ChemoSpec/man/cv_pcaSpectra.Rd          |only
 ChemoSpec-4.0-0/ChemoSpec/man/evalClusters.Rd           |   56 -
 ChemoSpec-4.0-0/ChemoSpec/man/files2SpectraObject.Rd    |   24 
 ChemoSpec-4.0-0/ChemoSpec/man/getMaxCovByFreq.Rd        |only
 ChemoSpec-4.0-0/ChemoSpec/man/groupNcolor.Rd            |    7 
 ChemoSpec-4.0-0/ChemoSpec/man/hcaScores.Rd              |   10 
 ChemoSpec-4.0-0/ChemoSpec/man/hcaSpectra.Rd             |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/hmapSpectra.Rd            |    4 
 ChemoSpec-4.0-0/ChemoSpec/man/hypTestScores.Rd          |   22 
 ChemoSpec-4.0-0/ChemoSpec/man/isWholeNo.Rd              |    2 
 ChemoSpec-4.0-0/ChemoSpec/man/labelExtremes.Rd          |    2 
 ChemoSpec-4.0-0/ChemoSpec/man/labelExtremes3d.Rd        |    4 
 ChemoSpec-4.0-0/ChemoSpec/man/loopThruSpectra.Rd        |only
 ChemoSpec-4.0-0/ChemoSpec/man/makeEllipsoid.Rd          |    5 
 ChemoSpec-4.0-0/ChemoSpec/man/mclust3D.Rd               |    4 
 ChemoSpec-4.0-0/ChemoSpec/man/mclust3dSpectra.Rd        |   10 
 ChemoSpec-4.0-0/ChemoSpec/man/mclustSpectra.Rd          |   14 
 ChemoSpec-4.0-0/ChemoSpec/man/normSpectra.Rd            |   13 
 ChemoSpec-4.0-0/ChemoSpec/man/normVec.Rd                |    2 
 ChemoSpec-4.0-0/ChemoSpec/man/pcaDiag.Rd                |    9 
 ChemoSpec-4.0-0/ChemoSpec/man/plot2Loadings.Rd          |    8 
 ChemoSpec-4.0-0/ChemoSpec/man/plotHCA.Rd                |    4 
 ChemoSpec-4.0-0/ChemoSpec/man/plotLoadings.Rd           |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/plotScores.Rd             |   19 
 ChemoSpec-4.0-0/ChemoSpec/man/plotScores3D.Rd           |   12 
 ChemoSpec-4.0-0/ChemoSpec/man/plotScoresCor.Rd          |    2 
 ChemoSpec-4.0-0/ChemoSpec/man/plotScoresDecoration.Rd   |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/plotScoresRGL.Rd          |   10 
 ChemoSpec-4.0-0/ChemoSpec/man/plotScree.Rd              |   17 
 ChemoSpec-4.0-0/ChemoSpec/man/plotSpectra.Rd            |   18 
 ChemoSpec-4.0-0/ChemoSpec/man/plotSpectraJS.Rd          |only
 ChemoSpec-4.0-0/ChemoSpec/man/q2rPCA.Rd                 |    3 
 ChemoSpec-4.0-0/ChemoSpec/man/r_pcaSpectra.Rd           |only
 ChemoSpec-4.0-0/ChemoSpec/man/readJDX.Rd                |    5 
 ChemoSpec-4.0-0/ChemoSpec/man/removeFreq.Rd             |   20 
 ChemoSpec-4.0-0/ChemoSpec/man/removeSample.Rd           |   18 
 ChemoSpec-4.0-0/ChemoSpec/man/rowDist.Rd                |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/sPlotSpectra.Rd           |    7 
 ChemoSpec-4.0-0/ChemoSpec/man/sampleDistSpectra.Rd      |only
 ChemoSpec-4.0-0/ChemoSpec/man/shrinkLeaf.Rd             |    6 
 ChemoSpec-4.0-0/ChemoSpec/man/splitSpectraGroups.Rd     |   38 
 ChemoSpec-4.0-0/ChemoSpec/man/sumGroups.Rd              |    8 
 ChemoSpec-4.0-0/ChemoSpec/man/sumSpectra.Rd             |   10 
 ChemoSpec-4.0-0/ChemoSpec/man/surveySpectra.Rd          |only
 ChemoSpec-4.0-0/ChemoSpec/vignettes/ChemoSpec.Rnw       |   61 -
 ChemoSpec-4.0-0/ChemoSpec/vignettes/MetabPreProcess.pdf |only
 132 files changed, 1025 insertions(+), 982 deletions(-)

More information about ChemoSpec at CRAN
Permanent link

Package codetools updated to version 0.2-11 with previous version 0.2-10 dated 2015-01-17

Title: Code Analysis Tools for R
Description: Code analysis tools for R.
Author: Luke Tierney
Maintainer: Luke Tierney

Diff between codetools versions 0.2-10 dated 2015-01-17 and 0.2-11 dated 2015-03-10

 DESCRIPTION |    8 ++++----
 MD5         |    2 +-
 2 files changed, 5 insertions(+), 5 deletions(-)

More information about codetools at CRAN
Permanent link

Package forestplot updated to version 1.1 with previous version 1.0 dated 2014-12-29

Title: Advanced Forest Plot Using 'grid' Graphics
Description: The plot allows for multiple confidence intervals per row, custom fonts for each text element, custom confidence intervals, text mixed with expressions, and more. The aim is to extend the use of forest plots beyond meta-analyses. This is a more general version of the original 'rmeta' package's forestplot function and relies heavily on the 'grid' package.
Author: Max Gordon [aut, cre], Thomas Lumley [aut, ctb]
Maintainer: Max Gordon

Diff between forestplot versions 1.0 dated 2014-12-29 and 1.1 dated 2015-03-10

 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-10-1.svg |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-2-1.svg  |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-3-1.svg  |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-4-1.svg  |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-5-1.svg  |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-6-1.svg  |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-7-1.svg  |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-8-1.svg  |only
 forestplot-1.0/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-9-1.svg  |only
 forestplot-1.1/forestplot/DESCRIPTION                                                   |    8 
 forestplot-1.1/forestplot/MD5                                                           |   59 +-
 forestplot-1.1/forestplot/NEWS                                                          |   10 
 forestplot-1.1/forestplot/R/forestplot-package.R                                        |   22 
 forestplot-1.1/forestplot/R/forestplot.R                                                |  138 ++++--
 forestplot-1.1/forestplot/R/forestplot_helpers.R                                        |   56 +-
 forestplot-1.1/forestplot/R/private.R                                                   |  227 +++++++++-
 forestplot-1.1/forestplot/inst/doc/forestplot.R                                         |   58 +-
 forestplot-1.1/forestplot/inst/doc/forestplot.Rmd                                       |   92 +++-
 forestplot-1.1/forestplot/inst/doc/forestplot.html                                      |  103 +++-
 forestplot-1.1/forestplot/man/forestplot-package.Rd                                     |   21 
 forestplot-1.1/forestplot/man/forestplot.Rd                                             |   58 ++
 forestplot-1.1/forestplot/man/fpColors.Rd                                               |    5 
 forestplot-1.1/forestplot/man/prFpDrawLines.Rd                                          |only
 forestplot-1.1/forestplot/man/prFpGetGraphTicksAndClips.Rd                              |    9 
 forestplot-1.1/forestplot/man/prFpGetLabels.Rd                                          |    6 
 forestplot-1.1/forestplot/man/prFpGetLines.Rd                                           |only
 forestplot-1.1/forestplot/man/prFpPrintLabels.Rd                                        |    7 
 forestplot-1.1/forestplot/man/prGparMerge.Rd                                            |only
 forestplot-1.1/forestplot/tests/testthat/test-prFpGetLines.R                            |only
 forestplot-1.1/forestplot/tests/testthat/test-prGparMerge.R                             |only
 forestplot-1.1/forestplot/vignettes/forestplot.Rmd                                      |   92 +++-
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/Thumbs.db              |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-10-1.png |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-11-1.png |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-12-1.png |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-13-1.png |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-2-1.png  |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-3-1.png  |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-4-1.png  |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-5-1.png  |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-6-1.png  |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-7-1.png  |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-8-1.png  |only
 forestplot-1.1/forestplot/vignettes/forestplot_files/figure-html/unnamed-chunk-9-1.png  |only
 44 files changed, 748 insertions(+), 223 deletions(-)

More information about forestplot at CRAN
Permanent link

Package eVenn updated to version 2.2 with previous version 2.1.6 dated 2012-07-12

Title: A Powerful Tool to Quickly Compare Huge Lists and Draw Venn Diagrams
Description: Compute a matrix comparison of lists (from 2 to infinite) and plot the results in a Venn diagram if (N<=4) with regulation details. It allows to produce a complete annotated file, merging the annotations of the compared lists. It is also possible to compute an overlaps table to show the overlaps proportions of all the couples of lists and draw proportional Venn diagrams.
Author: Nicolas Cagnard
Maintainer: Nicolas Cagnard

Diff between eVenn versions 2.1.6 dated 2012-07-12 and 2.2 dated 2015-03-10

 eVenn-2.1.6/eVenn/R/evenn.r                    |only
 eVenn-2.1.6/eVenn/data/res2.rda                |only
 eVenn-2.1.6/eVenn/data/res3.rda                |only
 eVenn-2.1.6/eVenn/data/res4.rda                |only
 eVenn-2.1.6/eVenn/man/res2.Rd                  |only
 eVenn-2.1.6/eVenn/man/res3.Rd                  |only
 eVenn-2.1.6/eVenn/man/res4.Rd                  |only
 eVenn-2.2/eVenn/DESCRIPTION                    |   23 +-
 eVenn-2.2/eVenn/MD5                            |   30 ++-
 eVenn-2.2/eVenn/NAMESPACE                      |    6 
 eVenn-2.2/eVenn/R/autoevenn.R                  |only
 eVenn-2.2/eVenn/R/evenn.R                      |only
 eVenn-2.2/eVenn/R/man.evenn.R                  |  106 +++++++------
 eVenn-2.2/eVenn/data/Data_Binary_Matrix.rda    |only
 eVenn-2.2/eVenn/data/Data_Lists.rda            |only
 eVenn-2.2/eVenn/data/Data_Matrix_Of_Folds.rda  |only
 eVenn-2.2/eVenn/data/Data_Matrix_Of_Ratios.rda |only
 eVenn-2.2/eVenn/man/Data_Binary_Matrix.Rd      |only
 eVenn-2.2/eVenn/man/Data_Lists.Rd              |only
 eVenn-2.2/eVenn/man/Data_Matrix_Of_Folds.Rd    |only
 eVenn-2.2/eVenn/man/Data_Matrix_Of_Ratios.Rd   |only
 eVenn-2.2/eVenn/man/autoevenn.Rd               |only
 eVenn-2.2/eVenn/man/eVenn-package.Rd           |  110 +++++++-------
 eVenn-2.2/eVenn/man/evenn.Rd                   |  192 ++++++++++++++-----------
 eVenn-2.2/eVenn/man/man.evenn.Rd               |   36 ++--
 25 files changed, 278 insertions(+), 225 deletions(-)

More information about eVenn at CRAN
Permanent link

New package histmdl with initial version 0.3-2
Package: histmdl
Type: Package
Title: A Most Informative Histogram-Like Model
Version: 0.3-2
Date: 2015-03-10
Author: Jouke Witteveen
Maintainer: Jouke Witteveen
Description: Using the MDL principle, it is possible to estimate parameters for a histogram-like model. The package contains the implementation of such an estimation method.
License: GPL (>= 2)
ByteCompile: yes
Packaged: 2015-03-10 08:37:08 UTC; jouke
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-03-10 11:14:10

More information about histmdl at CRAN
Permanent link

New package blatr with initial version 1.0
Package: blatr
Type: Package
Title: Send Emails Using "Blat" for Windows
Version: 1.0
Date: 2014-03-17
Author: Stefan Milton Bache
Maintainer: Stefan Milton Bache
Description: A wrapper around the Blat command line SMTP mailer for Windows. Blat is public domain software, but be sure to read the license before use. It can be found at the Blat website http://www.blat.net.
License: MIT + file LICENSE
OS_type: windows
ByteCompile: Yes
Packaged: 2015-03-10 08:58:26 UTC; shb
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-10 11:22:37

More information about blatr at CRAN
Permanent link

Package bartMachine updated to version 1.2.0 with previous version 1.1.1 dated 2014-12-02

Title: Bayesian Additive Regression Trees
Description: An advanced implementation of Bayesian Additive Regression Trees with expanded features for data analysis and visualization.
Author: Adam Kapelner and Justin Bleich (R package), see COPYRIGHTS file for the authors of the java libraries
Maintainer: Adam Kapelner

Diff between bartMachine versions 1.1.1 dated 2014-12-02 and 1.2.0 dated 2015-03-10

 CHANGELOG                                             |   14 ++++
 DESCRIPTION                                           |   10 +--
 MD5                                                   |   32 +++++------
 R/bartMachine.R                                       |   30 +++-------
 R/bart_package_builders.R                             |   13 +++-
 R/bart_package_inits.R                                |    6 +-
 R/bart_package_plots.R                                |   23 ++++---
 R/zzz.R                                               |    3 -
 inst/doc/bartMachine.pdf                              |binary
 inst/java/bart_java.jar                               |binary
 java/bartMachine/bartMachineClassification.java       |    4 +
 java/bartMachine/bartMachineRegression.java           |    1 
 java/bartMachine/bartMachineRegressionMultThread.java |    8 ++
 java/bartMachine/bartMachineTreeNode.java             |   52 +++++++++---------
 java/bartMachine/bartMachine_a_base.java              |    2 
 java/bartMachine/bartMachine_g_mh.java                |    7 --
 man/bartMachine.Rd                                    |    9 ++-
 17 files changed, 120 insertions(+), 94 deletions(-)

More information about bartMachine at CRAN
Permanent link

New package vmsbase with initial version 2.0
Package: vmsbase
Version: 2.0
License: GPL (>= 2)
Description: The tools you need to process, analyze, combine, integrate and plot your fishery data: the georeferenced dataset from the Vessel Monitoring System (VMS), from the Automatic Information System (AIS) or other tracking devices, as well as the catches or landings dataset from the Logbook or Vessel Register. Package 'vmsbase' is equipped by Viewer Tools to visually inspect data at different steps of the analyses and to produce effective outputs for reports and scientific publications. Viewers are conceived to show the VMS pings, to visualize single or multiple tracks for fishing vessels, or to represent the VMS data on Google Viewer, so that the user can produce easy to interpret and more realistic visualization of both fishing effort and effort behaviour. Package 'vmsbase' represents the implementation of several R routines which have been developed by the "Tor Vergata" University of Rome Team involved in the Italian National Program for the Data Collection Framework for Fisheries Data between 2009-2012.
Title: GUI Tools to Process, Analyze and Plot Fisheries Data
Author: Lorenzo D'Andrea, Tommaso Russo, Antonio Parisi, Stefano Cataudella
Maintainer: Lorenzo D'Andrea
Date: 2015-03-10
Depends: sqldf, ggmap, mapdata, maps
Imports: marmap, intervals, methods, plotrix, sp, foreign, cluster, cairoDevice, ggplot2, DBI, RSQLite, fields, gsubfn, AMORE, ecodist, gWidgets, gWidgetsRGtk2, chron, maptools, outliers, PBSmapping, R6, grid, VennDiagram, gmt
URL: http://www.vmsbase.org/
Packaged: 2015-03-10 08:12:22 UTC; fish_team
ByteCompile: yes
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-10 09:25:05

More information about vmsbase at CRAN
Permanent link

New package MRIaggr with initial version 1.0
Package: MRIaggr
Type: Package
Title: Management, Display, and Processing of Medical Imaging Data
Version: 1.0
Date: 2015-02-27
Author: Brice Ozenne
Maintainer: Brice Ozenne
Description: Provide a compact storage for medical imaging data with access and display possibilities. Basic tools for processing brain imaging data are proposed like extraction of brain voxels, morphological image segmentation, and filtering / normalization of contrast parameters. Specific tools are also provided for blood perfusion imaging to calculate hypoperfusion and reperfusion volumes.
License: GPL-3
Depends: R (>= 2.10), Rcpp
Imports: methods, stats4, RANN, spam, Matrix, ROCR, fields, mritc, oro.dicom, oro.nifti
Suggests: rgl
LazyLoad: yes
LinkingTo: Rcpp, RcppArmadillo
Collate: 'Generic_functions.R' 'RcppExports.R' 'Associated_functions.R' 'GR_functions.R' 'Class_Carto3D.R' 'Class_MRIaggr.R'
Packaged: 2015-03-09 07:46:39 UTC; ozennebr
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-03-10 09:24:57

More information about MRIaggr at CRAN
Permanent link

New package showtextdb with initial version 1.0
Package: showtextdb
Type: Package
Title: Font Files for the 'showtext' Package
Version: 1.0
Date: 2015-03-09
Author: Yixuan Qiu and authors/contributors of the included fonts. See file AUTHORS for details.
Maintainer: Yixuan Qiu
Description: Providing font files that are needed by the 'showtext' package.
Depends: sysfonts
License: Apache License (>= 2.0)
Copyright: see file COPYRIGHTS
Packaged: 2015-03-10 01:08:39 UTC; qyx
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-03-10 07:01:27

More information about showtextdb at CRAN
Permanent link

Package relevent updated to version 1.0-4 with previous version 1.0-3 dated 2013-04-03

Title: Relational Event Models
Description: Tools to fit relational event models.
Author: Carter T. Butts
Maintainer: Carter T. Butts

Diff between relevent versions 1.0-3 dated 2013-04-03 and 1.0-4 dated 2015-03-10

 ChangeLog    |    7 +++++++
 DESCRIPTION  |   11 +++++------
 MD5          |   11 ++++++-----
 NAMESPACE    |    3 +++
 R/rem.R      |   11 +++++------
 R/rem.dyad.R |    4 +---
 inst         |only
 7 files changed, 27 insertions(+), 20 deletions(-)

More information about relevent at CRAN
Permanent link

Package RcppParallel updated to version 4.3.6 with previous version 4.3.4 dated 2015-03-07

Title: Parallel Programming Tools for Rcpp
Description: High level functions for doing parallel programming with Rcpp. For example, the parallelFor function can be used to convert the work of a standard serial "for" loop into a parallel one and the parallelReduce function can be used for accumulating aggregate or other values.
Author: JJ Allaire [aut, cre], Romain Francois [aut, cph], Gregory Vandenbrouck [aut], Marcus Geelnard [aut, cph] (TinyThread library, http://tinythreadpp.bitsnbites.eu/), RStudio [cph], Intel [aut, cph] (Intel TBB library, https://www.threadingbuildingblocks.org/), Microsoft [cph]
Maintainer: JJ Allaire

Diff between RcppParallel versions 4.3.4 dated 2015-03-07 and 4.3.6 dated 2015-03-10

 DESCRIPTION                             |   10 +++++-----
 MD5                                     |   22 +++++++++++-----------
 NEWS                                    |    7 +++++++
 R/build.R                               |    9 +++++++--
 inst/include/tbb/concurrent_vector.h    |    4 ++--
 src/Makevars                            |   11 ++++++-----
 src/options.cpp                         |    4 ++++
 src/tbb/build/windows.inc               |   18 ++++++++++++------
 src/tbb/include/tbb/concurrent_vector.h |    4 ++--
 tests/testthat/cpp/distance.cpp         |    2 +-
 tests/testthat/cpp/transform.cpp        |   23 +++++++++++++----------
 tests/testthat/test-transform.R         |    2 +-
 12 files changed, 71 insertions(+), 45 deletions(-)

More information about RcppParallel at CRAN
Permanent link

Package EIAdata updated to version 0.0.3 with previous version 0.0.2 dated 2014-12-16

Title: R Wrapper for the Energy Information Administration (EIA) API
Description: An R wrapper to allow the user to query categories and Series IDs, and import data, from the EIA's API.
Author: Matthew Brigida
Maintainer: Matthew Brigida

Diff between EIAdata versions 0.0.2 dated 2014-12-16 and 0.0.3 dated 2015-03-10

 DESCRIPTION            |    8 ++++----
 MD5                    |    6 +++---
 man/EIAdata-package.Rd |    9 ++++++---
 man/getCatEIA.Rd       |   44 +++++++++++++++++++++++++++++---------------
 4 files changed, 42 insertions(+), 25 deletions(-)

More information about EIAdata at CRAN
Permanent link

Package BDgraph updated to version 2.17 with previous version 2.16 dated 2015-02-27

Title: Graph Estimation Based on Birth-Death MCMC Approach
Description: A general framework to perform Bayesian structure learning in undirected graphical models. The main target is high-dimensional data analysis wherein either continuous or discrete variables.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi

Diff between BDgraph versions 2.16 dated 2015-02-27 and 2.17 dated 2015-03-10

 BDgraph-2.16/BDgraph/R/I.g.R         |only
 BDgraph-2.16/BDgraph/man/I.g.Rd      |only
 BDgraph-2.17/BDgraph/DESCRIPTION     |    6 +++---
 BDgraph-2.17/BDgraph/MD5             |   24 ++++++++++++++----------
 BDgraph-2.17/BDgraph/NAMESPACE       |    1 -
 BDgraph-2.17/BDgraph/R/bdgraph.R     |   14 ++++++++++----
 BDgraph-2.17/BDgraph/R/phat.R        |   15 ++++++++-------
 BDgraph-2.17/BDgraph/R/plotcoda.R    |   22 +++++++++++++++-------
 BDgraph-2.17/BDgraph/R/select.R      |   16 ++++++++--------
 BDgraph-2.17/BDgraph/build           |only
 BDgraph-2.17/BDgraph/inst            |only
 BDgraph-2.17/BDgraph/man/plotcoda.Rd |    4 +++-
 BDgraph-2.17/BDgraph/src/BDgraph.cpp |   19 +++++++++++++++++++
 BDgraph-2.17/BDgraph/vignettes       |only
 14 files changed, 80 insertions(+), 41 deletions(-)

More information about BDgraph at CRAN
Permanent link


Built and running on Debian GNU/Linux using R, littler and blosxom. Styled with Bootstrap.