Title: Thematic Maps
Description: Thematic maps are geographical maps in which spatial data distributions are visualized. This package offers a flexible, layer-based, and easy to use approach to create thematic maps, such as choropleths and bubble maps.
Author: Martijn Tennekes [aut, cre],
Joel Gombin [ctb],
Kent Russell [ctb],
Richard Zijdeman [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap versions 1.2 dated 2015-12-11 and 1.4 dated 2016-03-18
tmap-1.2/tmap/R/itmap.R |only tmap-1.2/tmap/R/leaflet_functions.R |only tmap-1.2/tmap/R/tm_misc.R |only tmap-1.2/tmap/man/itmap.Rd |only tmap-1.4/tmap/DESCRIPTION | 20 tmap-1.4/tmap/MD5 | 201 +++--- tmap-1.4/tmap/NAMESPACE | 41 - tmap-1.4/tmap/NEWS | 19 tmap-1.4/tmap/R/animation_tmap.R | 5 tmap-1.4/tmap/R/append_data.R | 14 tmap-1.4/tmap/R/bb.R | 39 - tmap-1.4/tmap/R/cat2pal.R | 43 - tmap-1.4/tmap/R/col2hex.R |only tmap-1.4/tmap/R/geocode_OSM.R |only tmap-1.4/tmap/R/get_asp_ratio.R | 24 tmap-1.4/tmap/R/get_proj4_code.R | 9 tmap-1.4/tmap/R/get_raster_data.R | 52 + tmap-1.4/tmap/R/get_sp_coordinates.R |only tmap-1.4/tmap/R/gridplot.R | 130 +++- tmap-1.4/tmap/R/kde2D.R | 2 tmap-1.4/tmap/R/line_functions.R |only tmap-1.4/tmap/R/map2scale.R | 6 tmap-1.4/tmap/R/map_coloring.R | 22 tmap-1.4/tmap/R/meta_plot.R | 171 +++-- tmap-1.4/tmap/R/num2pal.R | 77 +- tmap-1.4/tmap/R/onLoad.R | 2 tmap-1.4/tmap/R/pkg.R | 23 tmap-1.4/tmap/R/plot_all.R | 180 ++--- tmap-1.4/tmap/R/plot_map.R | 62 - tmap-1.4/tmap/R/plot_misc_functions.R | 162 +++- tmap-1.4/tmap/R/preprocess_gt.R |only tmap-1.4/tmap/R/preprocess_shapes.R |only tmap-1.4/tmap/R/print_tmap.R | 447 ++++++++----- tmap-1.4/tmap/R/process_bubbles.R | 36 - tmap-1.4/tmap/R/process_col_vector.R | 17 tmap-1.4/tmap/R/process_color.R | 72 ++ tmap-1.4/tmap/R/process_data.R | 14 tmap-1.4/tmap/R/process_facet_layout.R |only tmap-1.4/tmap/R/process_fill.R | 19 tmap-1.4/tmap/R/process_layers.R | 83 +- tmap-1.4/tmap/R/process_lines.R | 93 +- tmap-1.4/tmap/R/process_meta.R | 92 ++ tmap-1.4/tmap/R/process_raster.R | 86 -- tmap-1.4/tmap/R/process_shapes.R | 132 +--- tmap-1.4/tmap/R/process_text.R | 45 + tmap-1.4/tmap/R/process_tm.R | 166 ++--- tmap-1.4/tmap/R/qtm.R | 75 +- tmap-1.4/tmap/R/read_GPX.R | 4 tmap-1.4/tmap/R/read_osm.R | 19 tmap-1.4/tmap/R/read_shape.R | 10 tmap-1.4/tmap/R/sample_dots.R | 70 +- tmap-1.4/tmap/R/save_tmap.R | 180 ++++- tmap-1.4/tmap/R/set_projection.R | 92 ++ tmap-1.4/tmap/R/smooth_map.R | 5 tmap-1.4/tmap/R/split_shps.R | 11 tmap-1.4/tmap/R/split_tm.R | 2 tmap-1.4/tmap/R/tm_layers.R | 79 +- tmap-1.4/tmap/R/tm_layout.R | 64 + tmap-1.4/tmap/R/tm_misc_elements.R | 39 - tmap-1.4/tmap/R/tm_shape.R | 8 tmap-1.4/tmap/R/tm_view.R |only tmap-1.4/tmap/R/tmap_mode.R |only tmap-1.4/tmap/R/to_raster.R | 23 tmap-1.4/tmap/R/view_tmap.R |only tmap-1.4/tmap/build/vignette.rds |binary tmap-1.4/tmap/data/Europe.rda |binary tmap-1.4/tmap/data/NLD_muni.rda |binary tmap-1.4/tmap/data/NLD_prov.rda |binary tmap-1.4/tmap/data/World.rda |binary tmap-1.4/tmap/inst/doc/tmap-modes.R |only tmap-1.4/tmap/inst/doc/tmap-modes.Rmd |only tmap-1.4/tmap/inst/doc/tmap-modes.html |only tmap-1.4/tmap/inst/doc/tmap-nutshell.R | 142 ++-- tmap-1.4/tmap/inst/doc/tmap-nutshell.Rmd | 336 +++++++--- tmap-1.4/tmap/inst/doc/tmap-nutshell.html | 974 ++++++++++++++---------------- tmap-1.4/tmap/man/animation_tmap.Rd | 30 tmap-1.4/tmap/man/bb.Rd | 30 tmap-1.4/tmap/man/calc_densities.Rd | 10 tmap-1.4/tmap/man/double_line.Rd |only tmap-1.4/tmap/man/geocode_OSM.Rd |only tmap-1.4/tmap/man/get_asp_ratio.Rd | 13 tmap-1.4/tmap/man/get_proj4.Rd | 5 tmap-1.4/tmap/man/land.Rd | 2 tmap-1.4/tmap/man/map_coloring.Rd | 10 tmap-1.4/tmap/man/poly_to_raster.Rd | 8 tmap-1.4/tmap/man/polygons.Rd | 26 tmap-1.4/tmap/man/print.tmap.Rd | 21 tmap-1.4/tmap/man/qtm.Rd | 31 tmap-1.4/tmap/man/read_GPX.Rd | 51 - tmap-1.4/tmap/man/read_osm.Rd | 75 +- tmap-1.4/tmap/man/sample_dots.Rd | 128 ++- tmap-1.4/tmap/man/save_tmap.Rd | 56 + tmap-1.4/tmap/man/set_projection.Rd | 5 tmap-1.4/tmap/man/smooth_map.Rd | 99 +++ tmap-1.4/tmap/man/tm_bubbles.Rd | 32 tmap-1.4/tmap/man/tm_compass.Rd | 12 tmap-1.4/tmap/man/tm_credits.Rd | 7 tmap-1.4/tmap/man/tm_facets.Rd | 85 ++ tmap-1.4/tmap/man/tm_grid.Rd | 8 tmap-1.4/tmap/man/tm_layout.Rd | 114 ++- tmap-1.4/tmap/man/tm_lines.Rd | 57 + tmap-1.4/tmap/man/tm_raster.Rd | 48 - tmap-1.4/tmap/man/tm_scale_bar.Rd | 9 tmap-1.4/tmap/man/tm_shape.Rd | 17 tmap-1.4/tmap/man/tm_text.Rd | 28 tmap-1.4/tmap/man/tm_view.Rd |only tmap-1.4/tmap/man/tmap-element.Rd | 2 tmap-1.4/tmap/man/tmap-package.Rd | 21 tmap-1.4/tmap/man/tmap_leaflet.Rd |only tmap-1.4/tmap/man/tmap_mode.Rd |only tmap-1.4/tmap/man/tmap_style.Rd |only tmap-1.4/tmap/vignettes/images |only tmap-1.4/tmap/vignettes/tmap-modes.Rmd |only tmap-1.4/tmap/vignettes/tmap-nutshell.Rmd | 159 +++- 114 files changed, 3626 insertions(+), 2312 deletions(-)
Title: Evaluation of Surrogate Endpoints in Clinical Trials
Description: In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a biomarker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's 7th Framework Programme for research, technological development and demonstration under Grant Agreement no 602552.
Author: Wim Van der Elst, Paul Meyvisch, Ariel Alonso, Hannah M. Ensor, Christopher J. Weir & Geert Molenberghs
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>
Diff between Surrogate versions 0.1-68 dated 2016-02-21 and 0.1-69 dated 2016-03-18
DESCRIPTION | 8 MD5 | 6 NEWS | 2 R/ICA.BinBin.Grid.Sample.R | 2992 ++++++++++++++++++++++----------------------- 4 files changed, 1499 insertions(+), 1509 deletions(-)
Title: Spatial Position Models
Description: Computes spatial position models: Stewart potentials, Reilly
catchment areas, Huff catchment areas.
Author: Timothée Giraud [cre, aut],
Hadrien Commenges [aut],
Joël Boulier [ctb]
Maintainer: Timothée Giraud <timothee.giraud@ums-riate.fr>
Diff between SpatialPosition versions 1.0 dated 2015-12-04 and 1.1 dated 2016-03-18
DESCRIPTION | 12 ++-- MD5 | 48 +++++++++------- NAMESPACE | 2 NEWS | 14 ++++ R/contourStewart.R | 120 ++++++------------------------------------ R/gridandmat.R | 10 ++- R/package.R | 11 ++- R/quickStewart.R |only R/rasterToContourPoly.R |only R/stewart.R | 7 +- README.md | 5 + build/vignette.rds |binary inst/doc/SpatialPosition.R | 2 inst/doc/SpatialPosition.Rmd | 2 inst/doc/SpatialPosition.html | 27 ++++----- inst/doc/StewartExample.R | 15 ++--- inst/doc/StewartExample.Rmd | 15 ++--- inst/doc/StewartExample.html | 42 +++++++------- man/SpatialPosition.Rd | 11 ++- man/contourStewart.Rd | 21 +++++-- man/plotStewart.Rd | 2 man/quickStewart.Rd |only man/rasterStewart.Rd | 2 man/rasterToContourPoly.Rd |only man/stewart.Rd | 3 - vignettes/SpatialPosition.Rmd | 2 vignettes/StewartExample.Rmd | 15 ++--- 27 files changed, 173 insertions(+), 215 deletions(-)
More information about SpatialPosition at CRAN
Permanent link
Title: Morphometrics using R
Description: A complete toolkit for morphometrics, from data extraction to multivariate analyses.
Most common 2D morphometrics approaches are included:
outlines, open outlines, configurations of landmarks, traditional morphometrics,
and facilities for data preparation, manipulation and visualization
with a consistent grammar throughout.
Momocs allows reproducible, complex morphometric analyses,
paves the way for a pure open-source workflow in R,
and other morphometrics approaches should be easy to plug in,
or develop from, on top of this canvas.
Author: Vincent Bonhomme [aut, cre],
Julien Claude [aut]
Maintainer: Vincent Bonhomme <bonhomme.vincent@gmail.com>
Diff between Momocs versions 0.2-6 dated 2014-03-07 and 1.0.0 dated 2016-03-18
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Title: Species Trait Data from Around the Web
Description: Species trait data from many different sources, including
sequence data from 'NCBI', plant trait data from 'BETYdb', invasive species
data from the Global Invasive Species Database and 'EOL', 'Traitbank' data
from 'EOL', Coral traits data from http://coraltraits.org, 'nativity' status
('Flora Europaea' or 'ITIS'), and 'Birdlife' International.
Author: Scott Chamberlain [aut, cre],
Zachary Foster [aut],
Ignasi Bartomeus [aut],
David LeBauer [aut],
David Harris [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between traits versions 0.1.2 dated 2015-09-12 and 0.2.0 dated 2016-03-18
DESCRIPTION | 14 +++-- LICENSE | 2 MD5 | 74 +++++++++++++++--------------- NAMESPACE | 19 ++++--- R/betydb.R | 31 +++++------- R/birdlife.R | 22 +++++--- R/coral.R | 8 +-- R/deprecated.R |only R/eol_invasive.R | 7 +- R/fe_native.R | 92 +++++++++++++++++++------------------ R/g_invasive.R | 20 ++++---- R/is_native.R | 59 ++++++++++++----------- R/leda.R | 105 ++++++++++++++++++++++++++---------------- R/ncbi_byid.R | 106 ++++++++++++++++++++++++++++++------------- R/ncbi_byname.R | 61 ++++++++++++------------ R/ncbi_searcher.R | 34 ++++++------- R/taxa_search.R |only R/traitbank.R | 2 R/traits-package.r | 6 ++ R/zzz.R | 15 ++++++ README.md | 56 +++++++++++----------- build/vignette.rds |binary man/betydb.Rd | 6 +- man/birdlife_habitat.Rd | 2 man/birdlife_threats.Rd | 2 man/coral.Rd | 2 man/eol_invasive_.Rd | 2 man/fe_native.Rd | 3 - man/g_invasive.Rd | 3 - man/is_native.Rd | 20 ++++---- man/leda.Rd | 36 ++++++++++++-- man/ncbi_byid.Rd | 28 ++++++----- man/ncbi_byname.Rd | 6 +- man/ncbi_searcher.Rd | 6 +- man/plantatt.Rd | 2 man/taxa_search.Rd |only man/traitbank.Rd | 2 man/traits-deprecated.Rd |only man/traits-package.Rd | 3 - tests/testthat/test-betydb.R | 8 +-- 40 files changed, 505 insertions(+), 359 deletions(-)
Title: Provides R-Language Code to Examine Quantitative Risk Management
Concepts
Description: Accompanying package to the book
Quantitative Risk Management: Concepts, Techniques and Tools by
Alexander J. McNeil, Rüdiger Frey, and Paul Embrechts.
Author: Bernhard Pfaff [aut, cre],
Marius Hofert [ctb],
Alexander McNeil [aut] (S-Plus original (QRMlib)),
Scott Ulmann [trl] (First R port as package QRMlib)
Maintainer: Bernhard Pfaff <bernhard@pfaffikus.de>
Diff between QRM versions 0.4-10 dated 2014-05-16 and 0.4-13 dated 2016-03-18
DESCRIPTION | 20 +++--- MD5 | 74 +++++++++++------------ NAMESPACE | 13 +++- R/GIG.R | 25 +++---- R/Student.R | 4 - R/game.R | 101 +++++++++++++++++++++----------- data/DJ.RData |binary data/DJ.df.RData |binary data/FXGBP.RData |binary data/FXGBP.df.RData |binary data/cac40.RData |binary data/cac40.df.RData |binary data/danish.RData |binary data/danish.df.RData |binary data/dji.RData |binary data/dji.df.RData |binary data/ftse100.RData |binary data/ftse100.df.RData |binary data/hsi.RData |binary data/hsi.df.RData |binary data/nasdaq.RData |binary data/nasdaq.df.RData |binary data/nikkei.RData |binary data/nikkei.df.RData |binary data/smi.RData |binary data/smi.df.RData |binary data/sp500.RData |binary data/sp500.df.RData |binary data/spdata.RData |binary data/spdata.df.RData |binary data/spdata.raw.RData |binary data/spdata.raw.df.RData |binary data/xdax.RData |binary data/xdax.df.RData |binary demo/game.R | 148 ++++++++++++++++++++++++++++++----------------- man/CopulaStudent.Rd | 2 man/game-aux.Rd | 41 ++++++------- man/game.Rd | 7 +- 38 files changed, 262 insertions(+), 173 deletions(-)
Title: Preprocessing of Aligned Sequences from HTS Analyses
Description: Pipeline and additional tools designed to handle aligned data from chromatin NGS experiments (less adapted for typical RNAseq applications). Specifically, starting from aligned reads after sequencing, the pipeline function aims at removing artefacts from datasets, estimate in-silico the fragments size, and generate WIG files with corrected values. The package also provides several tools for WIG files manipulations, scaling, merging and subtract (e.g. input).
Author: Romain Fenouil, Nicolas Descostes, Lionel Spinelli, Frederic Koch, Muhammad Ahmad Maqbool, Touati Benoukraf, Pierre Cauchy, Charl<c3><a8>ne Innocenti, Pierre Ferrier, Jean-Christophe Andrau
Maintainer: Romain Fenouil <romain.fenouil@mssm.edu>
Diff between Pasha versions 0.99.18 dated 2015-10-16 and 0.99.21 dated 2016-03-18
DESCRIPTION | 13 - MD5 | 22 +- NAMESPACE | 3 NEWS | 2 R/pipelineChipSeq.R | 222 ++++++++++++++++++---- R/test_functional.R | 9 inst/doc/Pasha.Rnw | 180 ++++++++++------- inst/doc/Pasha.pdf |binary inst/extdata/resultsFromFunctionalTestsWIG.tar.gz |binary man/processPipeline.Rd | 48 +++- tests/test_Pasha.Rout.save | 27 +- vignettes/Pasha.Rnw | 180 ++++++++++------- 12 files changed, 471 insertions(+), 235 deletions(-)
Title: An Extension to 'ggplot2', for the Creation of Ternary Diagrams
Description: Extends the functionality of 'ggplot2', providing the capability
to plot ternary diagrams for (subset of) the 'ggplot2' geometries. Additionally,
'ggtern' has implemented several NEW geometries which are unavailable to the
standard 'ggplot2' release. For further examples and documentation, please
proceed to the 'ggtern' website.
Author: Nicholas Hamilton [aut, cre]
Maintainer: Nicholas Hamilton <nick@ggtern.com>
Diff between ggtern versions 2.0.1 dated 2016-01-16 and 2.1.0 dated 2016-03-18
ggtern-2.0.1/ggtern/R/scales-.R |only ggtern-2.1.0/ggtern/DESCRIPTION | 32 ++++---- ggtern-2.1.0/ggtern/MD5 | 80 +++++++++++----------- ggtern-2.1.0/ggtern/NAMESPACE | 30 ++++++-- ggtern-2.1.0/ggtern/NEWS | 23 ++++++ ggtern-2.1.0/ggtern/R/aes.R | 12 ++- ggtern-2.1.0/ggtern/R/coord-tern.R | 23 ++++-- ggtern-2.1.0/ggtern/R/doc-theme-convenience.R | 23 +++--- ggtern-2.1.0/ggtern/R/geom-Xisoprop.R | 6 - ggtern-2.1.0/ggtern/R/geom-Xline.R | 60 ++++++++-------- ggtern-2.1.0/ggtern/R/geom-crosshair-tern.R |only ggtern-2.1.0/ggtern/R/geom-errorbarX.R | 6 + ggtern-2.1.0/ggtern/R/geom-interpolate-tern.R | 18 ++--- ggtern-2.1.0/ggtern/R/gg-internal.R | 2 ggtern-2.1.0/ggtern/R/ggtern-constructor.R | 4 - ggtern-2.1.0/ggtern/R/legend-draw-tern.R |only ggtern-2.1.0/ggtern/R/onLoad.R | 4 - ggtern-2.1.0/ggtern/R/plot-build.R | 54 +++++---------- ggtern-2.1.0/ggtern/R/plot-construction.R | 1 ggtern-2.1.0/ggtern/R/plot.R | 2 ggtern-2.1.0/ggtern/R/stat-confidence-tern.R | 6 + ggtern-2.1.0/ggtern/R/stat-density-tern.R | 3 ggtern-2.1.0/ggtern/R/stat-interpolate-methods.R |only ggtern-2.1.0/ggtern/R/stat-interpolate-tern.R | 82 +++++++++++++++-------- ggtern-2.1.0/ggtern/R/strip-unapproved.R | 16 +++- ggtern-2.1.0/ggtern/R/theme-defaults.R | 8 +- ggtern-2.1.0/ggtern/R/theme-elements.R | 4 - ggtern-2.1.0/ggtern/R/utilities.R | 7 + ggtern-2.1.0/ggtern/README.md | 8 +- ggtern-2.1.0/ggtern/TODO | 6 - ggtern-2.1.0/ggtern/build/partial.rdb |binary ggtern-2.1.0/ggtern/man/convenience_functions.Rd | 23 +++--- ggtern-2.1.0/ggtern/man/draw_key_tern.Rd |only ggtern-2.1.0/ggtern/man/geom_Xisoprop.Rd | 38 +++++----- ggtern-2.1.0/ggtern/man/geom_Xline.Rd | 38 +++++----- ggtern-2.1.0/ggtern/man/geom_confidence_tern.Rd | 34 +++++---- ggtern-2.1.0/ggtern/man/geom_crosshair_tern.Rd |only ggtern-2.1.0/ggtern/man/geom_density_tern.Rd | 34 +++++---- ggtern-2.1.0/ggtern/man/geom_errorbarX.Rd | 41 +++++------ ggtern-2.1.0/ggtern/man/geom_interpolate_tern.Rd | 54 ++++++++------- ggtern-2.1.0/ggtern/man/geom_smooth_tern.Rd | 34 +++++---- ggtern-2.1.0/ggtern/man/ggtern_themes.Rd | 7 + ggtern-2.1.0/ggtern/man/stat_density_tern.Rd | 34 +++++---- ggtern-2.1.0/ggtern/man/undocumented.Rd | 13 --- 44 files changed, 496 insertions(+), 374 deletions(-)
Title: Programmatic Access to the European Central Bank's Statistical
Data Warehouse (SDW)
Description: Provides an interface to the European Central Bank's Statistical
Data Warehouse API, allowing for programmatic retrieval of a vast quantity
of statistical data.
Author: Eric Persson [aut, cre]
Maintainer: Eric Persson <expersso5@gmail.com>
Diff between ecb versions 0.1 dated 2015-12-11 and 0.2 dated 2016-03-18
ecb-0.1/ecb/README.md |only ecb-0.2/ecb/DESCRIPTION | 11 ++- ecb-0.2/ecb/MD5 | 30 +++++----- ecb-0.2/ecb/NAMESPACE | 2 ecb-0.2/ecb/R/main.R | 7 +- ecb-0.2/ecb/build/vignette.rds |binary ecb-0.2/ecb/inst/doc/ecb_sdw.R | 33 +++++------ ecb-0.2/ecb/inst/doc/ecb_sdw.Rmd | 10 ++- ecb-0.2/ecb/inst/doc/ecb_sdw.html | 99 ++++++++++++++++++---------------- ecb-0.2/ecb/man/convert_dates.Rd | 2 ecb-0.2/ecb/man/get_data.Rd | 4 - ecb-0.2/ecb/man/get_dataflows.Rd | 2 ecb-0.2/ecb/man/get_description.Rd | 2 ecb-0.2/ecb/man/get_dimensions.Rd | 2 ecb-0.2/ecb/tests |only ecb-0.2/ecb/vignettes/ecb_sdw.Rmd | 10 ++- ecb-0.2/ecb/vignettes/hicp_plot-1.png |only 17 files changed, 115 insertions(+), 99 deletions(-)
Title: Reimplementations of Functions Introduced Since R-3.0.0
Description: Provides implementations of functions which have been introduced in
R since version 3.0.0. The backports are conditionally exported which
results in R resolving the function names to the version shipped with R (if
available) and uses the implemented backports as fallback. This way package
developers can make use of the new functions without worrying about the
minimum required R version.
Author: Michel Lang <michellang@gmail.com>
Maintainer: Michel Lang <michellang@gmail.com>
Diff between backports versions 1.0.1 dated 2016-03-10 and 1.0.2 dated 2016-03-18
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ R/file.x.r | 6 +++--- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: IRT Item-Person Map with 'ConQuest' Integration
Description: A powerful yet simple graphical tool available in the field of psychometrics is the Wright Map (also known as item maps or item-person maps), which presents the location of both respondents and items on the same scale. Wright Maps are commonly used to present the results of dichotomous or polytomous item response models. The 'WrightMap' package provides functions to create these plots from item parameters and person estimates stored as R objects. Although the package can be used in conjunction with any software used to estimate the IRT model (e.g. 'eRm' or 'IRToys' in 'R', or 'Stata', 'Mplus', etc.), 'WrightMap' features special integration with 'ConQuest' to facilitate reading and plotting its output directly.The 'wrightMap' function creates Wright Maps based on person estimates and item parameters produced by an item response analysis. The 'CQmodel' function reads output files created using 'ConQuest' software and creates a set of data frames for easy data manipulation, bundled in a 'CQmodel' object. The 'wrightMap' function can take a 'CQmodel' object as input or it can be used to create Wright Maps directly from data frames of person and item parameters.
Author: David Torres Irribarra & Rebecca Freund
Maintainer: David Torres Irribarra <dti@berkeley.edu>
Diff between WrightMap versions 1.1 dated 2014-03-31 and 1.2 dated 2016-03-18
WrightMap-1.1/WrightMap/R/FitPlot.R |only WrightMap-1.1/WrightMap/R/wrightMap.CQmodel.R |only WrightMap-1.1/WrightMap/R/wrightMap.character.R |only WrightMap-1.1/WrightMap/R/wrightMap.default.R |only WrightMap-1.2/WrightMap/DESCRIPTION | 12 - WrightMap-1.2/WrightMap/MD5 | 63 ++++-- WrightMap-1.2/WrightMap/NAMESPACE | 34 +++ WrightMap-1.2/WrightMap/NEWS |only WrightMap-1.2/WrightMap/R/CQmodel.R | 152 ++++++++++---- WrightMap-1.2/WrightMap/R/cutLines.R |only WrightMap-1.2/WrightMap/R/difplot.CQmodel.R |only WrightMap-1.2/WrightMap/R/difplot.R |only WrightMap-1.2/WrightMap/R/difplot.character.R |only WrightMap-1.2/WrightMap/R/difplot.default.R |only WrightMap-1.2/WrightMap/R/fitgraph.CQmodel.R | 29 +- WrightMap-1.2/WrightMap/R/fitgraph.default.R | 6 WrightMap-1.2/WrightMap/R/fitgraph.numeric.R |only WrightMap-1.2/WrightMap/R/itemClassic.R |only WrightMap-1.2/WrightMap/R/itemData.CQmodel.R |only WrightMap-1.2/WrightMap/R/itemData.R |only WrightMap-1.2/WrightMap/R/itemData.character.R |only WrightMap-1.2/WrightMap/R/itemData.default.R |only WrightMap-1.2/WrightMap/R/itemHist.R |only WrightMap-1.2/WrightMap/R/itemModern.R |only WrightMap-1.2/WrightMap/R/make.deltas.CQmodel.R | 84 ++++---- WrightMap-1.2/WrightMap/R/make.thresholds.CQmodel.R | 6 WrightMap-1.2/WrightMap/R/make.thresholds.default.R | 189 ++++++++++-------- WrightMap-1.2/WrightMap/R/make.thresholds.matrix.R |only WrightMap-1.2/WrightMap/R/personData.CQmodel.R |only WrightMap-1.2/WrightMap/R/personData.R |only WrightMap-1.2/WrightMap/R/personData.character.R |only WrightMap-1.2/WrightMap/R/personData.default.R |only WrightMap-1.2/WrightMap/R/personDens.R |only WrightMap-1.2/WrightMap/R/personHist.R |only WrightMap-1.2/WrightMap/R/plotCI.R |only WrightMap-1.2/WrightMap/R/ppPlot.R |only WrightMap-1.2/WrightMap/R/wrightMap.R | 73 ++++++ WrightMap-1.2/WrightMap/README.md | 6 WrightMap-1.2/WrightMap/inst/extdata/ex6a.shw |only WrightMap-1.2/WrightMap/man/CQmodel.Rd | 7 WrightMap-1.2/WrightMap/man/WrightMap-package.Rd | 85 +++----- WrightMap-1.2/WrightMap/man/fitgraph.Rd | 25 +- WrightMap-1.2/WrightMap/man/item.person.data.Rd |only WrightMap-1.2/WrightMap/man/item.side.Rd |only WrightMap-1.2/WrightMap/man/make.thresholds.Rd | 22 +- WrightMap-1.2/WrightMap/man/person.side.Rd |only WrightMap-1.2/WrightMap/man/plotCI.Rd |only WrightMap-1.2/WrightMap/man/ppPlot.Rd |only WrightMap-1.2/WrightMap/man/wrightMap.Rd | 209 +++----------------- 49 files changed, 563 insertions(+), 439 deletions(-)
Title: A 'Whoapi' API Client
Description: Retrieve data from the 'Whoapi' (https://whoapi.com) store of
domain information, including a domain's geographic location, registration
status and search prominence.
Author: Oliver Keyes
Maintainer: Oliver Keyes <ironholds@gmail.com>
Diff between whoapi versions 0.1.0 dated 2015-06-25 and 0.1.1 dated 2016-03-18
DESCRIPTION | 14 ++++++++------ MD5 | 36 ++++++++++++++++++------------------ NAMESPACE | 2 +- R/domain_info.R | 8 ++++++-- R/domain_metadata.R | 12 ++++++++---- build/vignette.rds |binary inst/doc/Whoapi.html | 13 +++++++++---- man/certificate_info.Rd | 4 +++- man/domain_location.Rd | 4 +++- man/domain_metadata.Rd | 4 +++- man/domain_rank.Rd | 4 +++- man/domain_search.Rd | 4 +++- man/is_blacklisted.Rd | 2 +- man/is_taken.Rd | 5 ++++- man/whoapi.Rd | 2 +- man/whoapi_token.Rd | 2 +- man/whois_info.Rd | 4 +++- tests/testthat/test_info.R | 32 ++++++++++++++++++++------------ tests/testthat/test_metadata.R | 33 ++++++++++++++++++++------------- 19 files changed, 115 insertions(+), 70 deletions(-)
Title: Modelling and Analysis of Leaf Gas Exchange Data
Description: Coupled leaf gas exchange model, A-Ci curve simulation and
fitting, leaf energy balance using Penman-Monteith, Cowan-Farquhar
optimization, unit conversions.
Author: Remko Duursma [aut, cre]
Maintainer: Remko Duursma <remkoduursma@gmail.com>
Diff between plantecophys versions 1.0 dated 2015-11-19 and 1.0-2 dated 2016-03-18
plantecophys-1.0-2/plantecophys/DESCRIPTION | 7 +- plantecophys-1.0-2/plantecophys/MD5 | 52 ++++-------------- plantecophys-1.0-2/plantecophys/NAMESPACE | 2 plantecophys-1.0-2/plantecophys/R/LeafEnergyBalance.R | 2 plantecophys-1.0-2/plantecophys/R/fitBB.R | 4 - plantecophys-1.0-2/plantecophys/R/fitaci.R | 1 plantecophys-1.0-2/plantecophys/R/fitacis.R | 22 +++++-- plantecophys-1.0-2/plantecophys/man/AciC4.Rd | 4 - plantecophys-1.0-2/plantecophys/man/Conversions.Rd | 10 +-- plantecophys-1.0-2/plantecophys/man/FARAO.Rd | 2 plantecophys-1.0-2/plantecophys/man/Photosyn.Rd | 48 ++++++++-------- plantecophys-1.0-2/plantecophys/man/PhotosynEB.Rd | 4 - plantecophys-1.0-2/plantecophys/man/acidata1.Rd | 2 plantecophys-1.0-2/plantecophys/man/fitBB.Rd | 11 ++- plantecophys-1.0-2/plantecophys/man/fitaci.Rd | 23 ++++--- plantecophys-1.0/plantecophys/inst/web |only 16 files changed, 91 insertions(+), 103 deletions(-)
Title: Manage Google Spreadsheets from R
Description: Interact with Google Sheets from R.
Author: Jennifer Bryan [aut, cre],
Joanna Zhao [aut]
Maintainer: Jennifer Bryan <jenny@stat.ubc.ca>
Diff between googlesheets versions 0.1.0 dated 2015-07-05 and 0.2.0 dated 2016-03-18
googlesheets-0.1.0/googlesheets/R/http_requests.R |only googlesheets-0.1.0/googlesheets/R/permissions.R |only googlesheets-0.1.0/googlesheets/inst/mini-gap.csv |only googlesheets-0.1.0/googlesheets/inst/mini-gap.ods |only googlesheets-0.1.0/googlesheets/inst/mini-gap.tsv |only googlesheets-0.1.0/googlesheets/inst/mini-gap.txt |only googlesheets-0.1.0/googlesheets/inst/mini-gap.xlsx |only googlesheets-0.1.0/googlesheets/man/gdrive_GET.Rd |only googlesheets-0.1.0/googlesheets/man/gdrive_POST.Rd |only googlesheets-0.1.0/googlesheets/man/gdrive_PUT.Rd |only googlesheets-0.1.0/googlesheets/man/get_google_token.Rd |only googlesheets-0.1.0/googlesheets/man/gs_auth_suspend.Rd |only googlesheets-0.1.0/googlesheets/man/gs_user.Rd |only googlesheets-0.1.0/googlesheets/man/gsheets_DELETE.Rd |only googlesheets-0.1.0/googlesheets/man/gsheets_GET.Rd |only googlesheets-0.1.0/googlesheets/man/gsheets_POST.Rd |only googlesheets-0.1.0/googlesheets/man/gsheets_PUT.Rd |only googlesheets-0.1.0/googlesheets/man/token_exists.Rd |only googlesheets-0.1.0/googlesheets/tests/testthat/for_reference/gap_sheet5_get_via_cf.rds |only googlesheets-0.1.0/googlesheets/tests/testthat/for_reference/gap_sheet5_get_via_lf.rds |only googlesheets-0.1.0/googlesheets/tests/testthat/for_reference/gap_sheet5_gs_read_cellfeed.rds |only googlesheets-0.1.0/googlesheets/tests/testthat/for_reference/gap_sheet5_gs_read_listfeed.rds |only googlesheets-0.1.0/googlesheets/tests/testthat/for_reference/iris_pvt_get_via_lf.rds |only googlesheets-0.1.0/googlesheets/tests/testthat/for_reference/iris_pvt_gs_read_cellfeed.rds |only googlesheets-0.1.0/googlesheets/tests/testthat/for_reference/iris_pvt_gs_read_listfeed.rds |only googlesheets-0.1.0/googlesheets/tests/testthat/test-gs-create-delete-copy.R |only googlesheets-0.1.0/googlesheets/tests/testthat/test-gs-download.R |only googlesheets-0.2.0/googlesheets/DESCRIPTION | 16 googlesheets-0.2.0/googlesheets/LICENSE | 2 googlesheets-0.2.0/googlesheets/MD5 | 259 - googlesheets-0.2.0/googlesheets/NAMESPACE | 14 googlesheets-0.2.0/googlesheets/NEWS.md |only googlesheets-0.2.0/googlesheets/R/gd_metadata.R |only googlesheets-0.2.0/googlesheets/R/gd_permissions.R |only googlesheets-0.2.0/googlesheets/R/gd_user.R |only googlesheets-0.2.0/googlesheets/R/googlesheet.R | 38 googlesheets-0.2.0/googlesheets/R/googlesheets.R | 1 googlesheets-0.2.0/googlesheets/R/gs_add_row.R | 51 googlesheets-0.2.0/googlesheets/R/gs_auth.R | 310 - googlesheets-0.2.0/googlesheets/R/gs_browse.R |only googlesheets-0.2.0/googlesheets/R/gs_copy.R | 50 googlesheets-0.2.0/googlesheets/R/gs_delete.R | 35 googlesheets-0.2.0/googlesheets/R/gs_download.R | 68 googlesheets-0.2.0/googlesheets/R/gs_edit_cells.R | 73 googlesheets-0.2.0/googlesheets/R/gs_example-sheet-setup.R | 123 googlesheets-0.2.0/googlesheets/R/gs_inspect.R | 11 googlesheets-0.2.0/googlesheets/R/gs_ls.R | 10 googlesheets-0.2.0/googlesheets/R/gs_new.R | 39 googlesheets-0.2.0/googlesheets/R/gs_old-sheets.R | 2 googlesheets-0.2.0/googlesheets/R/gs_read.R | 54 googlesheets-0.2.0/googlesheets/R/gs_read_cellfeed.R | 97 googlesheets-0.2.0/googlesheets/R/gs_read_csv.R | 109 googlesheets-0.2.0/googlesheets/R/gs_read_listfeed.R | 206 - googlesheets-0.2.0/googlesheets/R/gs_register.R | 42 googlesheets-0.2.0/googlesheets/R/gs_rename.R |only googlesheets-0.2.0/googlesheets/R/gs_reshape_cellfeed.R | 138 googlesheets-0.2.0/googlesheets/R/gs_simplify_cellfeed.R | 100 googlesheets-0.2.0/googlesheets/R/gs_upload.R | 68 googlesheets-0.2.0/googlesheets/R/gs_webapp.R | 3 googlesheets-0.2.0/googlesheets/R/gs_ws.R | 111 googlesheets-0.2.0/googlesheets/R/httr-helpers.R |only googlesheets-0.2.0/googlesheets/R/utils.R | 109 googlesheets-0.2.0/googlesheets/R/zzz.R | 11 googlesheets-0.2.0/googlesheets/README.md | 113 googlesheets-0.2.0/googlesheets/build/vignette.rds |binary googlesheets-0.2.0/googlesheets/inst/doc/basic-usage.R | 284 + googlesheets-0.2.0/googlesheets/inst/doc/basic-usage.Rmd | 309 + googlesheets-0.2.0/googlesheets/inst/doc/basic-usage.html | 1679 +++++----- googlesheets-0.2.0/googlesheets/inst/doc/formulas-and-formatted-numbers.R |only googlesheets-0.2.0/googlesheets/inst/doc/formulas-and-formatted-numbers.Rmd |only googlesheets-0.2.0/googlesheets/inst/doc/formulas-and-formatted-numbers.html |only googlesheets-0.2.0/googlesheets/inst/doc/managing-auth-tokens.R |only googlesheets-0.2.0/googlesheets/inst/doc/managing-auth-tokens.Rmd |only googlesheets-0.2.0/googlesheets/inst/doc/managing-auth-tokens.html |only googlesheets-0.2.0/googlesheets/inst/mini-gap |only googlesheets-0.2.0/googlesheets/man/cell-specification.Rd | 3 googlesheets-0.2.0/googlesheets/man/construct_url_from_key.Rd | 2 googlesheets-0.2.0/googlesheets/man/construct_ws_feed_from_key.Rd | 6 googlesheets-0.2.0/googlesheets/man/example-sheets.Rd | 83 googlesheets-0.2.0/googlesheets/man/extract_key_from_url.Rd | 3 googlesheets-0.2.0/googlesheets/man/gd_user.Rd |only googlesheets-0.2.0/googlesheets/man/google_token.Rd |only googlesheets-0.2.0/googlesheets/man/google_user.Rd | 4 googlesheets-0.2.0/googlesheets/man/googlesheet.Rd | 10 googlesheets-0.2.0/googlesheets/man/googlesheets.Rd | 2 googlesheets-0.2.0/googlesheets/man/gs_add_row.Rd | 10 googlesheets-0.2.0/googlesheets/man/gs_auth.Rd | 70 googlesheets-0.2.0/googlesheets/man/gs_browse.Rd |only googlesheets-0.2.0/googlesheets/man/gs_copy.Rd | 3 googlesheets-0.2.0/googlesheets/man/gs_deauth.Rd |only googlesheets-0.2.0/googlesheets/man/gs_delete.Rd | 6 googlesheets-0.2.0/googlesheets/man/gs_download.Rd | 13 googlesheets-0.2.0/googlesheets/man/gs_edit_cells.Rd | 3 googlesheets-0.2.0/googlesheets/man/gs_grepdel.Rd | 3 googlesheets-0.2.0/googlesheets/man/gs_inspect.Rd | 4 googlesheets-0.2.0/googlesheets/man/gs_ls.Rd | 5 googlesheets-0.2.0/googlesheets/man/gs_new.Rd | 3 googlesheets-0.2.0/googlesheets/man/gs_perm_add.Rd | 5 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Title: Comparison of Alternative Multiple Sequence Alignments
Description: Methods for comparing two alternative multiple
sequence alignments (MSAs) to determine whether they align homologous residues in
the same columns as one another. It then classifies similarities and differences
into conserved gaps, conserved sequence, merges, splits or shifts of one MSA relative
to the other. Summarising these categories for each MSA column yields information
on which sequence regions are agreed upon my both MSAs, and which differ. Several
plotting functions enable easily visualisation of the comparison data for analysis.
Author: Thomas Shafee, Ira Cooke
Maintainer: Thomas Shafee <thomas.shafee@gmail.com>
Diff between AlignStat versions 1.1.1 dated 2016-03-16 and 1.1.3 dated 2016-03-18
DESCRIPTION | 6 ++-- MD5 | 14 +++++------ R/Plots.R | 52 ++++++++++++++++++++---------------------- R/compare_alignments.R | 14 ++++++++--- README.md | 27 +++++++++++++-------- data/comparison_alignment.rda |binary data/reference_alignment.rda |binary tests/testthat/test-align.R | 48 +++++++++++++++++++------------------- 8 files changed, 86 insertions(+), 75 deletions(-)