Title: Graph Plotting Methods, Psychometric Data Visualization and
Graphical Model Estimation
Description: Fork of qgraph - Weighted network visualization and analysis, as well as Gaussian graphical model computation. See Epskamp et al. (2012) <doi:10.18637/jss.v048.i04>.
Author: Sacha Epskamp [aut, cre],
Giulio Costantini [aut],
Jonas Haslbeck [aut],
Adela Isvoranu [aut],
Angelique O. J. Cramer [ctb],
Lourens J. Waldorp [ctb],
Verena D. Schmittmann [ctb],
Denny Borsboom [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between qgraph versions 1.9.3 dated 2022-12-09 and 1.9.4 dated 2023-03-20
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS | 3 +++ R/igraphConversion.R | 46 +++++++++++++++++++++++----------------------- inst/CITATION | 12 ++++++------ man/as.igraph.Rd | 5 +++-- src/Makevars | 6 ++++-- src/Makevars.win | 5 +++-- 8 files changed, 52 insertions(+), 45 deletions(-)
Title: Wrappers for 'GDAL' Utilities Executables
Description: R's 'sf' package ships with self-contained 'GDAL'
executables, including a bare bones interface to several
'GDAL'-related utility programs collectively known as the 'GDAL
utilities'. For each of those utilities, this package provides an
R wrapper whose formal arguments closely mirror those of the
'GDAL' command line interface. The utilities operate on data
stored in files and typically write their output to other
files. Therefore, to process data stored in any of R's more common
spatial formats (i.e. those supported by the 'sp', 'sf', and
'raster' packages), first write them to disk, then process them
with the package's wrapper functions before reading the outputted
results back into R. GDAL function arguments introduced in GDAL
version 3.5.2 or earlier are supported.
Author: Joshua O'Brien
Maintainer: Joshua O'Brien <joshmobrien@gmail.com>
Diff between gdalUtilities versions 1.2.3 dated 2022-12-15 and 1.2.4 dated 2023-03-20
DESCRIPTION | 10 +- MD5 | 52 ++++++------ NEWS.md | 9 ++ R/gdal_grid.R | 18 +++- R/gdal_rasterize.R | 15 ++- R/gdal_translate.R | 19 +++- R/gdalbuildvrt.R | 15 ++- R/gdaldem.R | 19 +++- R/gdalinfo.R | 16 ++- R/gdalmdiminfo.R | 13 ++- R/gdalmdimtranslate.R | 16 ++- R/gdalwarp.R | 18 +++- R/nearblack.R | 15 ++- R/ogr2ogr.R | 16 ++- R/zzz.R | 9 -- build/partial.rdb |binary man/gdal_grid.Rd | 9 +- man/gdal_rasterize.Rd | 6 + man/gdal_translate.Rd | 11 +- man/gdalbuildvrt.Rd | 202 ++++++++++++++++++++++++----------------------- man/gdaldem.Rd | 6 + man/gdalinfo.Rd | 149 +++++++++++++++++----------------- man/gdalmdiminfo.Rd | 126 +++++++++++++++-------------- man/gdalmdimtranslate.Rd | 170 ++++++++++++++++++++------------------- man/gdalwarp.Rd | 10 +- man/nearblack.Rd | 6 + man/ogr2ogr.Rd | 6 + 27 files changed, 561 insertions(+), 400 deletions(-)
Title: Analysis and Manipulation of Data from Minecraft Bedrock Edition
Description: Implements an interface to Minecraft (Bedrock Edition) worlds. Supports the analysis and management of these worlds and game saves.
Author: Reed Cartwright [aut, cre] ,
Rich FitzJohn [ctb],
Christian Stigen Larsen [ctb],
The LevelDB Authors [cph]
Maintainer: Reed Cartwright <racartwright@gmail.com>
Diff between rbedrock versions 0.2.0 dated 2022-03-10 and 0.3.0 dated 2023-03-20
rbedrock-0.2.0/rbedrock/R/block_entities.R |only rbedrock-0.2.0/rbedrock/R/entities.R |only rbedrock-0.2.0/rbedrock/R/finalization.R |only rbedrock-0.2.0/rbedrock/R/maps2d.R |only rbedrock-0.2.0/rbedrock/R/maps3d.R |only rbedrock-0.2.0/rbedrock/R/options.R |only rbedrock-0.2.0/rbedrock/R/pending_block_ticks.R |only rbedrock-0.2.0/rbedrock/R/random_block_ticks.R |only rbedrock-0.2.0/rbedrock/man/BlockEntities.Rd |only rbedrock-0.2.0/rbedrock/man/Entities.Rd |only rbedrock-0.2.0/rbedrock/man/Finalization.Rd |only rbedrock-0.2.0/rbedrock/man/Maps2D.Rd |only rbedrock-0.2.0/rbedrock/man/Maps3D.Rd |only rbedrock-0.2.0/rbedrock/man/PendingBlockTicks.Rd |only rbedrock-0.2.0/rbedrock/man/RandomBlockTicks.Rd |only rbedrock-0.2.0/rbedrock/tests/testthat/test_block_entities.R |only rbedrock-0.2.0/rbedrock/tests/testthat/test_entities.R |only rbedrock-0.2.0/rbedrock/tests/testthat/test_finalization.R |only rbedrock-0.2.0/rbedrock/tests/testthat/test_maps2d.R |only rbedrock-0.2.0/rbedrock/tests/testthat/test_maps3d.R |only rbedrock-0.3.0/rbedrock/DESCRIPTION | 12 rbedrock-0.3.0/rbedrock/MD5 | 168 +-- rbedrock-0.3.0/rbedrock/NAMESPACE | 118 +- rbedrock-0.3.0/rbedrock/NEWS.md | 19 rbedrock-0.3.0/rbedrock/R/R6.R | 96 +- rbedrock-0.3.0/rbedrock/R/actor.R |only rbedrock-0.3.0/rbedrock/R/bedrock_leveldb.R | 110 +- rbedrock-0.3.0/rbedrock/R/biomes.R | 360 ++++--- rbedrock-0.3.0/rbedrock/R/block_entity.R |only rbedrock-0.3.0/rbedrock/R/blocks.R | 286 +++--- rbedrock-0.3.0/rbedrock/R/checksums.R | 84 - rbedrock-0.3.0/rbedrock/R/chunk_version.R | 40 rbedrock-0.3.0/rbedrock/R/data.R | 30 rbedrock-0.3.0/rbedrock/R/data2d.R |only rbedrock-0.3.0/rbedrock/R/data3d.R |only rbedrock-0.3.0/rbedrock/R/entity.R |only rbedrock-0.3.0/rbedrock/R/example.R | 3 rbedrock-0.3.0/rbedrock/R/finalized_state.R |only rbedrock-0.3.0/rbedrock/R/hsa.R | 100 +- rbedrock-0.3.0/rbedrock/R/keys.R | 229 ++--- rbedrock-0.3.0/rbedrock/R/leveldat.R | 33 rbedrock-0.3.0/rbedrock/R/nbt.R | 178 ++- rbedrock-0.3.0/rbedrock/R/pending_ticks.R |only rbedrock-0.3.0/rbedrock/R/random.R | 26 rbedrock-0.3.0/rbedrock/R/random_ticks.R |only rbedrock-0.3.0/rbedrock/R/utils.R | 25 rbedrock-0.3.0/rbedrock/R/worlds.R | 97 +- rbedrock-0.3.0/rbedrock/R/zzz.R |only rbedrock-0.3.0/rbedrock/README.md | 30 rbedrock-0.3.0/rbedrock/configure | 13 rbedrock-0.3.0/rbedrock/inst/extdata/default_level.dat |binary rbedrock-0.3.0/rbedrock/inst/extdata/example3.mcworld |only rbedrock-0.3.0/rbedrock/man/ActorDigest.Rd |only rbedrock-0.3.0/rbedrock/man/Actors.Rd |only rbedrock-0.3.0/rbedrock/man/Biomes.Rd | 56 - rbedrock-0.3.0/rbedrock/man/BlockEntity.Rd |only rbedrock-0.3.0/rbedrock/man/Checksums.Rd | 9 rbedrock-0.3.0/rbedrock/man/ChunkVersion.Rd | 20 rbedrock-0.3.0/rbedrock/man/Data2D.Rd |only rbedrock-0.3.0/rbedrock/man/Data3D.Rd |only rbedrock-0.3.0/rbedrock/man/Entity.Rd |only rbedrock-0.3.0/rbedrock/man/FinalizedState.Rd |only rbedrock-0.3.0/rbedrock/man/HSA.Rd | 8 rbedrock-0.3.0/rbedrock/man/PendingTicks.Rd |only rbedrock-0.3.0/rbedrock/man/RandomTicks.Rd |only rbedrock-0.3.0/rbedrock/man/SubchunkBlocks.Rd | 21 rbedrock-0.3.0/rbedrock/man/bedrock_leveldb_open.Rd | 4 rbedrock-0.3.0/rbedrock/man/bedrockdb.Rd | 13 rbedrock-0.3.0/rbedrock/man/chrkeys_to_rawkeys.Rd | 13 rbedrock-0.3.0/rbedrock/man/chunk_keys.Rd | 14 rbedrock-0.3.0/rbedrock/man/delete_values.Rd | 6 rbedrock-0.3.0/rbedrock/man/get_nbt_data.Rd | 13 rbedrock-0.3.0/rbedrock/man/get_subchunk_layers_data.Rd | 10 rbedrock-0.3.0/rbedrock/man/minecraft_worlds.Rd | 4 rbedrock-0.3.0/rbedrock/man/nbt.Rd | 3 rbedrock-0.3.0/rbedrock/man/new_nbt.Rd | 3 rbedrock-0.3.0/rbedrock/man/rbedrock_example.Rd | 3 rbedrock-0.3.0/rbedrock/man/read_leveldat.Rd | 10 rbedrock-0.3.0/rbedrock/src/Makevars | 1 rbedrock-0.3.0/rbedrock/src/Makevars.win | 4 rbedrock-0.3.0/rbedrock/src/actors.c |only rbedrock-0.3.0/rbedrock/src/actors.h |only rbedrock-0.3.0/rbedrock/src/bedrock_leveldb.c | 8 rbedrock-0.3.0/rbedrock/src/bedrock_leveldb.h | 8 rbedrock-0.3.0/rbedrock/src/dummy.cpp |only rbedrock-0.3.0/rbedrock/src/init.c | 13 rbedrock-0.3.0/rbedrock/src/key_conv.c | 305 +++++- rbedrock-0.3.0/rbedrock/src/nbt.c | 27 rbedrock-0.3.0/rbedrock/src/random.c | 6 rbedrock-0.3.0/rbedrock/src/subchunk.c | 2 rbedrock-0.3.0/rbedrock/src/support.c | 2 rbedrock-0.3.0/rbedrock/src/support.h | 2 rbedrock-0.3.0/rbedrock/tests/testthat/test_1nbt.R | 395 ++++++-- rbedrock-0.3.0/rbedrock/tests/testthat/test_2example.R | 3 rbedrock-0.3.0/rbedrock/tests/testthat/test_3bedrockdb.R | 25 rbedrock-0.3.0/rbedrock/tests/testthat/test_4keys.R | 407 +++++++- rbedrock-0.3.0/rbedrock/tests/testthat/test_actor.R |only rbedrock-0.3.0/rbedrock/tests/testthat/test_biomes.R | 52 - rbedrock-0.3.0/rbedrock/tests/testthat/test_block_entity.R |only rbedrock-0.3.0/rbedrock/tests/testthat/test_blocks.R | 456 +++++----- rbedrock-0.3.0/rbedrock/tests/testthat/test_checksums.R | 62 - rbedrock-0.3.0/rbedrock/tests/testthat/test_data.R | 160 ++- rbedrock-0.3.0/rbedrock/tests/testthat/test_data2d.R |only rbedrock-0.3.0/rbedrock/tests/testthat/test_data3d.R |only rbedrock-0.3.0/rbedrock/tests/testthat/test_entity.R |only rbedrock-0.3.0/rbedrock/tests/testthat/test_finalized_state.R |only rbedrock-0.3.0/rbedrock/tests/testthat/test_hsa.R | 132 +- rbedrock-0.3.0/rbedrock/tests/testthat/test_random.R | 37 rbedrock-0.3.0/rbedrock/tests/testthat/test_worlds.R | 8 109 files changed, 2826 insertions(+), 1556 deletions(-)
Title: Multicountry Term Structure of Interest Rates Models
Description: Estimation routines for several classes of affine term structure of interest rates models. All the models are based on the single-country unspanned macroeconomic risk framework from Joslin, Priebsch, and Singleton (2014) <doi:10.1111/jofi.12131>. Multicountry extensions such as the ones of Jotikasthira, Le, and Lundblad (2015) <doi:10.1016/j.jfineco.2014.09.004> and Candelon and Moura (2021) <http://hdl.handle.net/2078.1/249985> are also available.
Author: Rubens Moura
Maintainer: Rubens Moura <rubens.gtmoura@gmail.com>
Diff between MultiATSM versions 0.3.1 dated 2023-03-08 and 0.3.2 dated 2023-03-20
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/NumOutputs.R | 3 +-- inst/doc/my-vignette.html | 4 ++-- 4 files changed, 10 insertions(+), 11 deletions(-)
Title: Interactive R Unit Tests
Description: Simplifies regression tests by comparing objects produced by test
code with earlier versions of those same objects. If objects are unchanged
the tests pass, otherwise execution stops with error details. If in
interactive mode, tests can be reviewed through the provided interactive
environment.
Author: Brodie Gaslam [aut, cre],
R Core Team [cph]
Maintainer: Brodie Gaslam <brodie.gaslam@yahoo.com>
Diff between unitizer versions 1.4.18 dated 2022-03-25 and 1.4.19 dated 2023-03-20
DESCRIPTION | 8 - MD5 | 40 ++++---- NEWS.md | 12 ++ R/browse.R | 23 +--- R/load.R | 4 R/unitize.R | 16 +-- R/unitize.core.R | 11 ++ README.md | 2 build/vignette.rds |binary inst/doc/u0_unitizer_index.html | 14 +- inst/doc/u1_intro.html | 179 ++++++++++++++++++------------------ inst/doc/u2_tests.html | 51 +++++----- inst/doc/u3_interactive-env.html | 49 +++++---- inst/doc/u4_reproducible-tests.html | 56 ++++++----- inst/doc/u5_miscellaneous.html | 62 +++++------- man/unitize.Rd | 16 +-- tests/t-get.R | 3 tests/t-get.Rout.save | 15 +-- tests/t-utz1.Rout.save | 21 +++- tests/t-utz2.R | 22 ++++ tests/t-utz2.Rout.save | 148 +++++++++++++++++++++++++++-- 21 files changed, 473 insertions(+), 279 deletions(-)
Title: Judd, McClelland, & Ryan Formatting for ANOVA Output
Description: Produces ANOVA tables in the format used by Judd, McClelland,
and Ryan (2017, ISBN: 978-1138819832) in their introductory textbook,
Data Analysis. This includes proportional reduction in error and
formatting to improve ease the transition between the book and R.
Author: Adam Blake [cre, aut] ,
Jeff Chrabaszcz [aut],
Ji Son [aut] ,
Jim Stigler [aut]
Maintainer: Adam Blake <adamblake@g.ucla.edu>
Diff between supernova versions 2.5.5 dated 2023-02-04 and 2.5.6 dated 2023-03-20
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 49 ++++++++++++++++++++++++++++--------------------- R/listwise_delete.R | 12 +++++++----- R/pairwise.R | 6 +++--- inst/WORDLIST | 9 +++------ 6 files changed, 50 insertions(+), 44 deletions(-)
Title: Estimation of the Probability of Informed Trading
Description: A comprehensive bundle of utilities for the estimation of probability of informed trading models: original PIN in Easley and O'Hara (1992) and Easley et al. (1996); Multilayer PIN (MPIN) in Ersan (2016); Adjusted PIN (AdjPIN) in Duarte and Young (2009); and volume-synchronized PIN (VPIN) in Easley et al. (2011, 2012). Implementations of various estimation methods suggested in the literature are included. Additional compelling features comprise posterior probabilities, an implementation of an expectation-maximization (EM) algorithm, and PIN decomposition into layers, and into bad/good components. Versatile data simulation tools, and trade classification algorithms are among the supplementary utilities. The package provides fast, compact, and precise utilities to tackle the sophisticated, error-prone, and time-consuming estimation procedure of informed trading, and this solely using the raw trade-level data.
Author: Montasser Ghachem [aut, cre, cph]
,
Oguz Ersan [aut]
Maintainer: Montasser Ghachem <montasser.ghachem@pinstimation.com>
Diff between PINstimation versions 0.1.1 dated 2022-10-18 and 0.1.2 dated 2023-03-20
PINstimation-0.1.1/PINstimation/man/aggregate_trades.Rd |only PINstimation-0.1.2/PINstimation/DESCRIPTION | 9 PINstimation-0.1.2/PINstimation/MD5 | 114 + PINstimation-0.1.2/PINstimation/NAMESPACE | 155 +- PINstimation-0.1.2/PINstimation/NEWS.md | 85 + PINstimation-0.1.2/PINstimation/R/args_defaultvalues.R | 8 PINstimation-0.1.2/PINstimation/R/args_validation.R | 8 PINstimation-0.1.2/PINstimation/R/data_aggregation.R | 214 ++- PINstimation-0.1.2/PINstimation/R/model_adjpin.R | 143 +- PINstimation-0.1.2/PINstimation/R/model_factorizations.R | 4 PINstimation-0.1.2/PINstimation/R/model_mpin.R | 21 PINstimation-0.1.2/PINstimation/R/model_mpin.ecm.R | 35 PINstimation-0.1.2/PINstimation/R/model_pin.R | 4 PINstimation-0.1.2/PINstimation/R/output_classes.R | 15 PINstimation-0.1.2/PINstimation/R/utilities_messages.R | 46 PINstimation-0.1.2/PINstimation/README.md | 15 PINstimation-0.1.2/PINstimation/build/partial.rdb |binary PINstimation-0.1.2/PINstimation/build/vignette.rds |binary PINstimation-0.1.2/PINstimation/inst/WORDLIST | 4 PINstimation-0.1.2/PINstimation/inst/doc/PINstimation.html | 38 PINstimation-0.1.2/PINstimation/inst/doc/parallel_processing.html | 22 PINstimation-0.1.2/PINstimation/inst/doc/sample_datasets.R |only PINstimation-0.1.2/PINstimation/inst/doc/sample_datasets.html |only PINstimation-0.1.2/PINstimation/inst/doc/sample_datasets.rmd |only PINstimation-0.1.2/PINstimation/man/PINstimation-package.Rd | 468 +++---- PINstimation-0.1.2/PINstimation/man/adjpin.Rd | 352 +++--- PINstimation-0.1.2/PINstimation/man/dailytrades.Rd | 50 PINstimation-0.1.2/PINstimation/man/data.series-class.Rd | 128 +- PINstimation-0.1.2/PINstimation/man/dataset-class.Rd | 194 +-- PINstimation-0.1.2/PINstimation/man/detecting-layers.Rd | 210 +-- PINstimation-0.1.2/PINstimation/man/estimate.adjpin-class.Rd | 192 +-- PINstimation-0.1.2/PINstimation/man/estimate.mpin-class.Rd | 174 +- PINstimation-0.1.2/PINstimation/man/estimate.mpin.ecm-class.Rd | 284 ++-- PINstimation-0.1.2/PINstimation/man/estimate.pin-class.Rd | 158 +- PINstimation-0.1.2/PINstimation/man/estimate.vpin-class.Rd | 120 +- PINstimation-0.1.2/PINstimation/man/factorizations.Rd | 394 +++--- PINstimation-0.1.2/PINstimation/man/generatedata_adjpin.Rd | 340 ++--- PINstimation-0.1.2/PINstimation/man/generatedata_mpin.Rd | 586 +++++----- PINstimation-0.1.2/PINstimation/man/get_posteriors.Rd | 174 +- PINstimation-0.1.2/PINstimation/man/hfdata.Rd | 54 PINstimation-0.1.2/PINstimation/man/initials_adjpin.Rd | 178 +-- PINstimation-0.1.2/PINstimation/man/initials_adjpin_cl.Rd | 220 +-- PINstimation-0.1.2/PINstimation/man/initials_adjpin_rnd.Rd | 178 +-- PINstimation-0.1.2/PINstimation/man/initials_mpin.Rd | 214 +-- PINstimation-0.1.2/PINstimation/man/initials_pin_ea.Rd | 194 +-- PINstimation-0.1.2/PINstimation/man/initials_pin_gwj.Rd | 134 +- PINstimation-0.1.2/PINstimation/man/initials_pin_yz.Rd | 206 +-- PINstimation-0.1.2/PINstimation/man/mpin_ecm.Rd | 514 ++++---- PINstimation-0.1.2/PINstimation/man/mpin_ml.Rd | 248 ++-- PINstimation-0.1.2/PINstimation/man/pin.Rd | 184 +-- PINstimation-0.1.2/PINstimation/man/pin_bayes.Rd | 234 +-- PINstimation-0.1.2/PINstimation/man/pin_ea.Rd | 196 +-- PINstimation-0.1.2/PINstimation/man/pin_gwj.Rd | 170 +- PINstimation-0.1.2/PINstimation/man/pin_yz.Rd | 216 +-- PINstimation-0.1.2/PINstimation/man/set_display_digits.Rd | 130 +- PINstimation-0.1.2/PINstimation/man/trade_classification.Rd |only PINstimation-0.1.2/PINstimation/man/vpin.Rd | 220 +-- PINstimation-0.1.2/PINstimation/vignettes/file1bd06dfe606.html |only PINstimation-0.1.2/PINstimation/vignettes/file43fc2afa55e6.html |only PINstimation-0.1.2/PINstimation/vignettes/file45bc54564746.html |only PINstimation-0.1.2/PINstimation/vignettes/file45bc7db6775.html |only PINstimation-0.1.2/PINstimation/vignettes/file65943770f92.html |only PINstimation-0.1.2/PINstimation/vignettes/file659462e7f54.html |only PINstimation-0.1.2/PINstimation/vignettes/sample_datasets.rmd |only 64 files changed, 4198 insertions(+), 4056 deletions(-)
Title: Sub-National Geospatial Data Archive: Geoprocessing Toolkit
Description: Tools for integrating spatially-misaligned GIS datasets. Part of the Sub-National Geospatial Data Archive System.
Author: Jason Byers, Marty Davidson, Yuri M. Zhukov
Maintainer: Yuri M. Zhukov <zhukov@umich.edu>
Diff between SUNGEO versions 0.2.292 dated 2022-08-18 and 1.1.1 dated 2023-03-20
DESCRIPTION | 12 ++--- MD5 | 62 ++++++++++++++++------------ NAMESPACE | 35 +++++++++------- R/data.R | 100 ++++++++++++++++++++++++++++++++++++++++------ R/geocode_osm.R | 34 +++++++++++++++ R/get_data.R |only R/get_info.R |only R/hot_spot.R | 34 +++++++-------- R/line2poly.R | 1 R/point2poly_krige.R | 64 ++++++++++++++--------------- R/point2poly_tess.R | 6 +- R/poly2poly_ap.R | 53 +++++++++++------------- R/sf2raster.R | 89 ++++++++++++++++++++++------------------ R/utils.R | 16 +++---- R/utm_select.R | 22 ++++++---- README.md | 65 ++++++++++++++++++++++++++--- data/available_data.rda |only data/cc_dict.rda |only data/clea_deu2009.rda |binary data/clea_deu2009_df.rda |binary data/clea_deu2009_pt.rda |binary data/gpw4_deu2010.rda |binary data/hex_05_deu.rda |binary data/highways_deu1992.rda |binary man/available_data.Rd |only man/cc_dict.Rd |only man/clea_deu2009.Rd | 2 man/get_data.Rd |only man/get_info.Rd |only man/gpw4_deu2010.Rd | 17 ++++--- man/hot_spot.Rd | 2 man/point2poly_simp.Rd | 4 + man/point2poly_tess.Rd | 8 ++- man/poly2poly_ap.Rd | 6 +- man/sf2raster.Rd | 12 ++--- man/utm_select.Rd | 9 +++- 36 files changed, 428 insertions(+), 225 deletions(-)
Title: Generalized Pairwise Comparisons
Description: Implementation of the Generalized Pairwise Comparisons (GPC)
as defined in Buyse (2010) <doi:10.1002/sim.3923> for complete observations,
and extended in Peron (2018) <doi:10.1177/0962280216658320> to deal with right-censoring.
GPC compare two groups of observations (intervention vs. control group)
regarding several prioritized endpoints to estimate the probability that a random observation drawn from
one group performs better than a random observation drawn from the other group (Mann-Whitney parameter).
The net benefit and win ratio statistics,
i.e. the difference and ratio between the probabilities relative to the intervention and control groups,
can then also be estimated. Confidence intervals and p-values are obtained based on asymptotic results (Ozenne 2021 <doi:10.1177/09622802211037067>),
non-parametric bootstrap, or permutations.
The software enables the use of thresholds of minimal importance difference,
stratification, non-prioritized endpoints (O Brien test [...truncated...]
Author: Brice Ozenne [aut, cre] ,
Julien Peron [ctb],
Eva Cantagallo [aut]
Maintainer: Brice Ozenne <brice.mh.ozenne@gmail.com>
Diff between BuyseTest versions 2.3.11 dated 2022-03-28 and 2.4.0 dated 2023-03-20
DESCRIPTION | 16 MD5 | 152 +- NAMESPACE | 4 NEWS | 15 R/1-setGeneric.R | 2 R/BuyseMultComp.R | 15 R/BuyseTTEM.R | 16 R/BuyseTest-check.R | 54 - R/BuyseTest-inference.R | 29 R/BuyseTest-initialization.R | 77 + R/BuyseTest-package.R | 1 R/BuyseTest-print.R | 4 R/BuyseTest.R | 54 - R/BuyseTest.options.R | 13 R/RcppExports.R | 27 R/S4-BuyseTest-coef.R | 263 +++- R/S4-BuyseTest-confint.R | 226 ++-- R/S4-BuyseTest-get.R | 282 +++-- R/S4-BuyseTest-sensitivity.R | 8 R/S4-BuyseTest-summary.R | 73 - R/S4-BuyseTest.R | 63 - R/S4-BuyseTest.options.R | 6 R/as.data.table.performance.R | 62 - R/auc.R | 20 R/autoplot.sensitivity.R | 20 R/brier.R | 38 R/iid.prodlim.R | 11 R/performance.R | 1479 +++++++++++++++++----------- R/performanceResample.R | 154 +- R/powerBuyseTest.R | 177 ++- R/rbind.performanceResample.R |only R/simBuyseTest.R | 230 +++- R/summary.performance.R |only R/valid.R | 8 build/vignette.rds |binary inst/CITATION | 39 inst/doc-Wilcoxon/wilcoxonTest-compress.pdf |binary inst/doc-Wilcoxon/wilcoxonTest.aux | 4 inst/doc-Wilcoxon/wilcoxonTest.log | 34 inst/doc-Wilcoxon/wilcoxonTest.org | 14 inst/doc-Wilcoxon/wilcoxonTest.pdf |binary inst/doc-Wilcoxon/wilcoxonTest.tex | 42 inst/doc/overview.pdf |binary inst/doc/wilcoxonTest.pdf |binary man/BuyseMultComp.Rd | 2 man/BuyseTest.Rd | 20 man/GPC_cpp.Rd | 16 man/S4BuyseTest-coef.Rd | 17 man/S4BuyseTest-confint.Rd | 11 man/S4BuyseTest-getIid.Rd | 23 man/S4BuyseTest-summary.Rd | 6 man/as.data.table.performance.Rd | 12 man/dot-colCumSum_cpp.Rd |only man/dot-rowCumSum_cpp.Rd | 4 man/iid.BuyseTestAuc.Rd | 4 man/iid.BuyseTestBrier.Rd | 4 man/iid.prodlim.Rd | 4 man/internal-initialization.Rd | 10 man/internal-print.Rd | 2 man/performance.Rd | 51 man/performanceResample.Rd | 9 man/powerBuyseTest.Rd | 57 - man/rbind.performance.Rd |only man/simulation.Rd | 52 man/summary.performance.Rd |only man/testArgs.Rd | 5 man/validFCTs.Rd | 5 src/FCT_buyseTest.cpp | 242 ++-- src/FCT_calcStatistic.h | 320 +++--- src/RcppExports.cpp | 40 src/utils-from-riskRegression.cpp | 15 tests/testthat/test-BuyseTest-PairScore.R | 6 tests/testthat/test-BuyseTest-checkValues.R | 2 tests/testthat/test-BuyseTest-engine.R | 6 tests/testthat/test-BuyseTest-iid.R | 49 tests/testthat/test-BuyseTest-multcomp.R | 20 tests/testthat/test-BuyseTest-performance.R |only tests/testthat/test-BuyseTest-previousBug.R | 12 tests/testthat/test-BuyseTest-resampling.R | 6 tests/testthat/test-BuyseTest-strata.R |only tests/testthat/test-BuyseTest-weightObs.R |only 81 files changed, 3002 insertions(+), 1762 deletions(-)
Title: Visible Vowels: Visualization of Vowel Variation
Description: Visualizes vowel variation in f0, F1, F2, F3 and duration.
Author: Wilbert Heeringa [aut, cre],
Hans Van de Velde [aut]
Maintainer: Wilbert Heeringa <wheeringa@fryske-akademy.nl>
Diff between visvow versions 1.3.6 dated 2023-02-28 and 1.3.7 dated 2023-03-20
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/visvow.R | 2 +- build/partial.rdb |binary 4 files changed, 7 insertions(+), 7 deletions(-)
Title: Truncated Normal Distribution
Description: Density, probability, quantile and random number
generation functions for the truncated normal distribution.
Author: Olaf Mersmann [aut, cre],
Heike Trautmann [aut],
Detlef Steuer [aut],
Bjoern Bornkamp [aut]
Maintainer: Olaf Mersmann <olafm@p-value.net>
Diff between truncnorm versions 1.0-8 dated 2018-02-27 and 1.0-9 dated 2023-03-20
DESCRIPTION | 7 +++---- MD5 | 7 ++++--- R/truncnorm.R | 4 ++-- src/truncnorm.c | 29 +++++++++++++++++++++++++++++ tests/testthat/test-bug-zero_len.R |only 5 files changed, 38 insertions(+), 9 deletions(-)
Title: Quantitative Analysis of Mass Spectrometry Data
Description: A complete analysis pipeline for matrix-assisted laser
desorption/ionization-time-of-flight (MALDI-TOF) and other
two-dimensional mass spectrometry data. In addition to commonly
used plotting and processing methods it includes distinctive
features, namely baseline subtraction methods such as
morphological filters (TopHat) or the statistics-sensitive
non-linear iterative peak-clipping algorithm (SNIP), peak
alignment using warping functions, handling of replicated
measurements as well as allowing spectra with different
resolutions.
Author: Sebastian Gibb [aut, cre] ,
Korbinian Strimmer [ths] ,
Sigurdur Smarason [ctb],
Laurent Gatto [ctb] ,
Paolo Inglese [ctb]
Maintainer: Sebastian Gibb <mail@sebastiangibb.de>
Diff between MALDIquant versions 1.22 dated 2022-11-10 and 1.22.1 dated 2023-03-20
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NAMESPACE | 4 ++-- NEWS | 6 ++++++ R/colMedians-functions.R | 2 +- R/estimateBaseline-functions.R | 4 ++-- R/localMaxima-functions.R | 2 +- R/morphologicalFilter-functions.R | 4 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/MALDIquant-intro.pdf |binary 11 files changed, 28 insertions(+), 22 deletions(-)
Title: Co-Ranking Matrix
Description: Calculates the co-ranking matrix to assess the
quality of a dimensionality reduction.
Author: Guido Kraemer [aut, cre]
Maintainer: Guido Kraemer <guido.kraemer@uni-leipzig.de>
Diff between coRanking versions 0.2.3 dated 2022-02-07 and 0.2.4 dated 2023-03-20
coRanking-0.2.3/coRanking/src/Makevars |only coRanking-0.2.4/coRanking/DESCRIPTION | 17 coRanking-0.2.4/coRanking/MD5 | 15 coRanking-0.2.4/coRanking/R/coranking_internals.R | 8 coRanking-0.2.4/coRanking/README.md | 5 coRanking-0.2.4/coRanking/build/vignette.rds |binary coRanking-0.2.4/coRanking/inst/doc/coranking.html | 489 +++++++++++++++------ coRanking-0.2.4/coRanking/man/coRanking-package.Rd | 4 coRanking-0.2.4/coRanking/src/coranking_main.cpp | 24 - 9 files changed, 390 insertions(+), 172 deletions(-)
Title: Quickly Find, Extract, and Marginalize U.S. Census Tables
Description: Extracting desired data using the proper Census variable names can
be time-consuming. This package takes the pain out of that process by
providing functions to quickly locate variables and download labeled tables
from the Census APIs (<https://www.census.gov/data/developers/data-sets.html>).
Author: Cory McCartan [aut, cre]
Maintainer: Cory McCartan <cmccartan@g.harvard.edu>
Diff between easycensus versions 1.0.0 dated 2022-08-25 and 1.1.1 dated 2023-03-20
DESCRIPTION | 11 +-- MD5 | 32 +++++----- NAMESPACE | 4 + NEWS.md | 7 ++ R/cens_find.R | 16 ++++- R/cens_geo.R | 6 - R/cens_get.R | 128 +++++++++++++++++++++++++++++++++++----- R/estimate.R | 2 R/parse_table.R | 1 R/sysdata.rda |binary R/tidy_labels.R | 2 README.md | 4 - man/cens_find.Rd | 6 + man/cens_geo.Rd | 9 ++ man/cens_get.Rd | 38 ++++++++++- man/easycensus-package.Rd | 1 tests/testthat/test-get_table.R | 12 +++ 17 files changed, 231 insertions(+), 48 deletions(-)
Title: Handling Hierarchically Structured Risk Factors using Random
Effects Models
Description: Using this package, you can fit a random effects model using either the hierarchical credibility model, a combination of the hierarchical credibility model with a generalized linear model or a Tweedie generalized linear mixed model. See Campo, B.D.C. and Antonio, K. (2023) <doi:10.1080/03461238.2022.2161413>.
Author: Campo Bavo D.C. [aut, cre]
Maintainer: Campo Bavo D.C. <bavo.decock@kuleuven.be>
Diff between actuaRE versions 0.1.4 dated 2023-03-02 and 0.1.5 dated 2023-03-20
DESCRIPTION | 9 ++---- MD5 | 30 ++++++++++----------- NAMESPACE | 2 - R/adjIntercept.R | 4 +- R/helperFunctions.R | 24 ++++++++--------- R/hierCredGLM.R | 12 ++++---- R/predict.R | 4 +- R/printFunctions.R | 4 +- build/partial.rdb |binary inst/doc/actuaRE.html | 59 ++++++++++++++++++++++--------------------- man/adjustIntercept.Rd | 2 - man/hierCredGLM-class.Rd | 2 - man/hierCredGLM.Rd | 4 +- man/hierCredTweedie-class.Rd | 2 - man/predict.hierCredGLM.Rd | 4 +- man/weights-actuaRE.Rd | 7 +---- 16 files changed, 83 insertions(+), 86 deletions(-)
Title: Explainable Machine Learning in Survival Analysis
Description: Survival analysis models are commonly used in medicine and other areas. Many of them
are too complex to be interpreted by human. Exploration and explanation is needed, but
standard methods do not give a broad enough picture. 'survex' provides easy-to-apply
methods for explaining survival models, both complex black-boxes and simpler statistical models.
They include methods specific to survival analysis such as SurvSHAP(t) introduced in Krzyzinski et al., (2023)
<doi:10.1016/j.knosys.2022.110234>, SurvLIME described in Kovalev et al., (2020) <doi:10.1016/j.knosys.2020.106164> as well as
extensions of existing ones described in Biecek et al., (2021) <doi:10.1201/9780429027192>.
Author: Mikolaj Spytek [aut, cre] ,
Mateusz Krzyzinski [aut] ,
Hubert Baniecki [aut] ,
Przemyslaw Biecek [aut]
Maintainer: Mikolaj Spytek <mikolajspytek@gmail.com>
Diff between survex versions 0.2.2 dated 2022-11-30 and 1.0.0 dated 2023-03-20
DESCRIPTION | 21 MD5 | 120 +-- NAMESPACE | 5 NEWS.md | 69 +- R/explain.R | 21 R/metrics.R | 1034 +++++++++++++++---------------- R/misc_set_theme_survex.R |only R/model_parts.R | 6 R/model_profile.R | 7 R/plot_feature_importance.R | 271 ++++---- R/plot_model_parts_survival.R | 72 +- R/plot_model_performance_survival.R | 108 +-- R/plot_model_profile_survival.R | 243 ++++--- R/plot_predict_parts_survival.R | 4 R/plot_predict_profile_survival.R | 4 R/plot_surv_ceteris_paribus.R | 109 ++- R/plot_surv_feature_importance.R | 32 R/plot_surv_lime.R | 201 +++--- R/plot_surv_model_performance.R | 29 R/plot_surv_model_performance_rocs.R | 150 ++-- R/plot_surv_shap.R | 27 R/predict_parts.R | 19 R/predict_profile.R | 8 R/print.R | 14 R/surv_feature_importance.R | 28 R/surv_lime.R | 119 +-- R/surv_model_performance.R | 14 R/surv_shap.R | 66 + R/utils.R | 20 README.md | 163 ++-- inst/doc/custom-explainers.html | 138 ++-- inst/doc/survex-usage.Rmd | 3 inst/doc/survex-usage.html | 164 ++-- man/explain_survival.Rd | 4 man/model_parts.surv_explainer.Rd | 4 man/model_profile.surv_explainer.Rd | 2 man/plot.feature_importance_explainer.Rd | 4 man/plot.model_parts_survival.Rd | 4 man/plot.model_performance_survival.Rd | 2 man/plot.model_profile_survival.Rd | 12 man/plot.predict_parts_survival.Rd | 4 man/plot.predict_profile_survival.Rd | 4 man/plot.surv_ceteris_paribus.Rd | 12 man/plot.surv_feature_importance.Rd | 12 man/plot.surv_lime.Rd | 3 man/plot.surv_model_performance.Rd | 8 man/plot.surv_model_performance_rocs.Rd | 3 man/plot.surv_shap.Rd | 17 man/predict_parts.surv_explainer.Rd | 13 man/predict_profile.surv_explainer.Rd | 4 man/surv_feature_importance.Rd | 2 man/surv_shap.Rd | 12 man/theme_survex.Rd |only man/transform_to_stepfunction.Rd | 2 tests/testthat/test-metrics.R | 35 + tests/testthat/test-model_parts.R | 22 tests/testthat/test-model_performance.R | 35 - tests/testthat/test-model_profile.R | 2 tests/testthat/test-predict_parts.R | 6 tests/testthat/test-predict_profile.R | 6 tests/testthat/test-utils.R | 19 vignettes/survex-usage.Rmd | 3 62 files changed, 1994 insertions(+), 1551 deletions(-)
Title: Risk Regression Models and Prediction Scores for Survival
Analysis with Competing Risks
Description: Implementation of the following methods for event history analysis.
Risk regression models for survival endpoints also in the presence of competing
risks are fitted using binomial regression based on a time sequence of binary
event status variables. A formula interface for the Fine-Gray regression model
and an interface for the combination of cause-specific Cox regression models.
A toolbox for assessing and comparing performance of risk predictions (risk
markers and risk prediction models). Prediction performance is measured by the
Brier score and the area under the ROC curve for binary possibly time-dependent
outcome. Inverse probability of censoring weighting and pseudo values are used
to deal with right censored data. Lists of risk markers and lists of risk models
are assessed simultaneously. Cross-validation repeatedly splits the data, trains
the risk prediction models on one part of each split and then summarizes and
compares the performance across splits.
Author: Thomas Alexander Gerds [aut, cre],
Johan Sebastian Ohlendorff [aut],
Paul Blanche [ctb],
Rikke Mortensen [ctb],
Marvin Wright [ctb],
Nikolaj Tollenaar [ctb],
John Muschelli [ctb],
Ulla Brasch Mogensen [ctb],
Brice Ozenne [aut]
Maintainer: Thomas Alexander Gerds <tag@biostat.ku.dk>
Diff between riskRegression versions 2022.11.28 dated 2022-11-30 and 2023.03.22 dated 2023-03-20
riskRegression-2022.11.28/riskRegression/src/AUCijFun.cpp |only riskRegression-2022.11.28/riskRegression/src/arma-wrap.cpp |only riskRegression-2022.11.28/riskRegression/src/arma-wrap.h |only riskRegression-2023.03.22/riskRegression/DESCRIPTION | 8 riskRegression-2023.03.22/riskRegression/MD5 | 93 +-- riskRegression-2023.03.22/riskRegression/R/RcppExports.R | 16 riskRegression-2023.03.22/riskRegression/R/Score.R | 76 +- riskRegression-2023.03.22/riskRegression/R/as.data.table.ate.R | 6 riskRegression-2023.03.22/riskRegression/R/ate.R | 10 riskRegression-2023.03.22/riskRegression/R/calcSeCSC.R | 49 + riskRegression-2023.03.22/riskRegression/R/confint.ate.R | 12 riskRegression-2023.03.22/riskRegression/R/crossvalPerf.R | 258 +++----- riskRegression-2023.03.22/riskRegression/R/discreteRoot.R | 6 riskRegression-2023.03.22/riskRegression/R/getCensoringWeights.R | 10 riskRegression-2023.03.22/riskRegression/R/getCoxInfo.R | 8 riskRegression-2023.03.22/riskRegression/R/getInfluenceCurve.R | 247 ++------ riskRegression-2023.03.22/riskRegression/R/getSplitMethod.R | 186 +++--- riskRegression-2023.03.22/riskRegression/R/plotRisk.R | 11 riskRegression-2023.03.22/riskRegression/R/predict.CauseSpecificCox.R | 1 riskRegression-2023.03.22/riskRegression/R/predict.FGR.R | 1 riskRegression-2023.03.22/riskRegression/R/predictCox.R | 2 riskRegression-2023.03.22/riskRegression/R/predictRisk.R | 15 riskRegression-2023.03.22/riskRegression/R/print.Score.R | 4 riskRegression-2023.03.22/riskRegression/R/summary.Score.R | 4 riskRegression-2023.03.22/riskRegression/R/wglm.R | 6 riskRegression-2023.03.22/riskRegression/inst/CITATION | 24 riskRegression-2023.03.22/riskRegression/man/Score.Rd | 29 riskRegression-2023.03.22/riskRegression/man/as.data.table.ate.Rd | 6 riskRegression-2023.03.22/riskRegression/man/ate.Rd | 4 riskRegression-2023.03.22/riskRegression/man/predictRisk.Rd | 3 riskRegression-2023.03.22/riskRegression/src/IC-Nelson-Aalen-cens-time.cpp | 5 riskRegression-2023.03.22/riskRegression/src/Makevars | 11 riskRegression-2023.03.22/riskRegression/src/Makevars.win | 2 riskRegression-2023.03.22/riskRegression/src/RcppExports.cpp | 52 - riskRegression-2023.03.22/riskRegression/src/aucCVFun.cpp |only riskRegression-2023.03.22/riskRegression/src/baseHaz.cpp | 2 riskRegression-2023.03.22/riskRegression/src/calcSeCSC.cpp | 29 riskRegression-2023.03.22/riskRegression/src/calculateDelongCovarianceMatrix.cpp | 2 riskRegression-2023.03.22/riskRegression/src/colCumSum.cpp | 2 riskRegression-2023.03.22/riskRegression/src/getInfluenceFunctionAUC.cpp | 265 +------- riskRegression-2023.03.22/riskRegression/src/getInfluenceFunctionBrier.cpp | 7 riskRegression-2023.03.22/riskRegression/src/iidCox.cpp | 2 riskRegression-2023.03.22/riskRegression/src/rowCumSum.cpp | 2 riskRegression-2023.03.22/riskRegression/src/rowSumsCrossprod.cpp | 2 riskRegression-2023.03.22/riskRegression/src/sweepCenterScale.cpp | 2 riskRegression-2023.03.22/riskRegression/src/weightedAverageIFCumhazard.cpp | 2 riskRegression-2023.03.22/riskRegression/tests/testthat/test-predictCox.R | 21 riskRegression-2023.03.22/riskRegression/vignettes/IFAUC.Rmd | 307 ++-------- riskRegression-2023.03.22/riskRegression/vignettes/IFBrier.Rmd | 2 riskRegression-2023.03.22/riskRegression/vignettes/IFKMCens.Rmd |only 50 files changed, 727 insertions(+), 1085 deletions(-)
More information about riskRegression at CRAN
Permanent link
Title: Tools for Working with Points and Intervals
Description: Tools for working with and comparing sets of points and intervals.
Author: Richard Bourgon <bourgon.richard@gene.com>
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between intervals versions 0.15.2 dated 2020-04-04 and 0.15.3 dated 2023-03-20
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NAMESPACE | 2 +- R/interval_complement-methods.R | 2 +- R/plot.Intervals_virtual.R | 2 +- R/reduce-methods.R | 2 +- R/which_nearest-methods.R | 2 +- build/vignette.rds |binary inst/doc/intervals_overview.pdf |binary man/Intervals-class.Rd | 4 ++-- man/Intervals_virtual-class.Rd | 18 +++++++++--------- man/sgd.Rd | 4 ++-- 12 files changed, 33 insertions(+), 33 deletions(-)
Title: Accounting for Random Displacements of True GPS Coordinates of
Data
Description: The purpose is to account for the random displacements
(jittering) of true survey household cluster center coordinates in geostatistical
analyses of Demographic and Health Surveys program (DHS) data. Adjustment for
jittering can be implemented either in the spatial random effect, or in the
raster/distance based covariates, or in both. Detailed information about the methods
behind the package functionality can be found in two preprints.
Umut Altay, John Paige, Andrea Riebler, Geir-Arne Fuglstad (2022) <arXiv:2202.11035v2>.
Umut Altay, John Paige, Andrea Riebler, Geir-Arne Fuglstad (2022) <arXiv:2211.07442v1>.
Author: Umut Altay [cre, aut],
John Paige [aut],
Geir-Arne Fuglstad [aut],
Andrea Riebler [aut]
Maintainer: Umut Altay <altayumut.ua@gmail.com>
Diff between GeoAdjust versions 1.0.0 dated 2023-03-13 and 1.0.1 dated 2023-03-20
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- R/estimateModel.R | 7 ++++--- R/plotPred.R | 41 ++++++++++++++++++++--------------------- R/predRes.R | 2 +- R/print.res.R | 2 +- man/estimateModel.Rd | 12 ++++++++++-- man/plotPred.Rd | 8 ++++---- man/predRes.Rd | 2 +- man/print.res.Rd | 2 +- src/compute.cpp | 2 +- 11 files changed, 56 insertions(+), 48 deletions(-)
Title: The Free Algebra
Description: The free algebra in R with non-commuting indeterminates.
Uses 'disordR' discipline
(Hankin, 2022, <doi:10.48550/ARXIV.2210.03856>). To cite the
package in publications please use Hankin (2022)
<doi:10.48550/ARXIV.2211.04002>.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between freealg versions 1.1-0 dated 2022-12-11 and 1.1-1 dated 2023-03-20
freealg-1.1-0/freealg/inst/freealg_arxiv.Rnw |only freealg-1.1-0/freealg/inst/freealg_arxiv.bib |only freealg-1.1-0/freealg/inst/sequence.Rmd |only freealg-1.1-1/freealg/DESCRIPTION | 9 ++++----- freealg-1.1-1/freealg/MD5 | 23 ++++++++++------------- freealg-1.1-1/freealg/R/free.R | 8 ++++---- freealg-1.1-1/freealg/README.md | 4 ---- freealg-1.1-1/freealg/build/freealg.pdf |binary freealg-1.1-1/freealg/build/partial.rdb |binary freealg-1.1-1/freealg/inst/doc/adjoint.pdf |binary freealg-1.1-1/freealg/inst/dot.Rmd | 8 ++++---- freealg-1.1-1/freealg/man/dot.Rd | 3 +-- freealg-1.1-1/freealg/man/subs.Rd | 2 +- freealg-1.1-1/freealg/tests/testthat/test_aad.R | 4 ++++ 14 files changed, 28 insertions(+), 33 deletions(-)
Title: Analyze Experimental High-Throughput (Omics) Data
Description: The efficient treatment and convenient analysis of experimental high-throughput (omics) data gets facilitated through this collection of diverse functions.
Several functions address advanced object-conversions, like manipulating lists of lists or lists of arrays, reorganizing lists to arrays or into separate vectors, merging of multiple entries, etc.
Another set of functions provides speed-optimized calculation of standard deviation (sd), coefficient of variance (CV) or standard error of the mean (SEM)
for data in matrixes or means per line with respect to additional grouping (eg n groups of replicates).
Other functions facilitate dealing with non-redundant information, by indexing unique, adding counters to redundant or eliminating lines with respect redundancy in a given reference-column, etc.
Help is provided to identify very closely matching numeric values to generate (partial) distance matrixes for very big data in a memory efficient manner or to reduce the complexity of large dat [...truncated...]
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrMisc versions 1.11.1 dated 2023-01-25 and 1.12.0 dated 2023-03-20
wrMisc-1.11.1/wrMisc/inst/doc/doc |only wrMisc-1.12.0/wrMisc/DESCRIPTION | 6 wrMisc-1.12.0/wrMisc/MD5 | 412 ++++--- wrMisc-1.12.0/wrMisc/NAMESPACE | 8 wrMisc-1.12.0/wrMisc/R/XYToDiffPpm.R | 14 wrMisc-1.12.0/wrMisc/R/addBeforFileExtension.R | 22 wrMisc-1.12.0/wrMisc/R/adjBy2ptReg.R | 108 + wrMisc-1.12.0/wrMisc/R/asSepList.R | 75 - wrMisc-1.12.0/wrMisc/R/buildTree.R | 20 wrMisc-1.12.0/wrMisc/R/checkStrictOrder.R | 84 + wrMisc-1.12.0/wrMisc/R/checkVectLength.R | 144 +- wrMisc-1.12.0/wrMisc/R/closeMatchMatrix.R | 55 wrMisc-1.12.0/wrMisc/R/colorAccording2.R | 15 wrMisc-1.12.0/wrMisc/R/combineAsN.R | 20 wrMisc-1.12.0/wrMisc/R/combineByEitherFactor.R | 55 wrMisc-1.12.0/wrMisc/R/convColorToTransp.R | 10 wrMisc-1.12.0/wrMisc/R/convMatr2df.R | 10 wrMisc-1.12.0/wrMisc/R/correctToUnique.R | 29 wrMisc-1.12.0/wrMisc/R/cutArrayInCluLike.R | 144 +- wrMisc-1.12.0/wrMisc/R/cutAtMultSites.R | 14 wrMisc-1.12.0/wrMisc/R/equLenNumber.R | 57 - wrMisc-1.12.0/wrMisc/R/extrSpcText.R | 51 wrMisc-1.12.0/wrMisc/R/filt3dimArr.R | 63 - wrMisc-1.12.0/wrMisc/R/filtSizeUniq.R | 21 wrMisc-1.12.0/wrMisc/R/filterNetw.R | 39 wrMisc-1.12.0/wrMisc/R/findCloseMatch.R | 125 +- wrMisc-1.12.0/wrMisc/R/findSimilFrom2sets.R | 107 - wrMisc-1.12.0/wrMisc/R/firstLineOfDat.R | 14 wrMisc-1.12.0/wrMisc/R/firstOfRepLines.R | 43 wrMisc-1.12.0/wrMisc/R/firstOfRepeated.R | 4 wrMisc-1.12.0/wrMisc/R/fusePairs.R | 81 - wrMisc-1.12.0/wrMisc/R/getValuesByUnique.R | 10 wrMisc-1.12.0/wrMisc/R/gitDataUrl.R | 6 wrMisc-1.12.0/wrMisc/R/htmlSpecCharConv.R | 9 wrMisc-1.12.0/wrMisc/R/keepCommonText.R | 22 wrMisc-1.12.0/wrMisc/R/levIndex.R | 8 wrMisc-1.12.0/wrMisc/R/linModelSelect.R | 54 wrMisc-1.12.0/wrMisc/R/linRegrParamAndPVal.R | 10 wrMisc-1.12.0/wrMisc/R/listBatchReplace.R | 14 wrMisc-1.12.0/wrMisc/R/listGroupsByNames.R | 15 wrMisc-1.12.0/wrMisc/R/lmSelClu.R | 12 wrMisc-1.12.0/wrMisc/R/lrbind.R | 11 wrMisc-1.12.0/wrMisc/R/makeMAList.R | 76 + wrMisc-1.12.0/wrMisc/R/makeNRedMatr.R | 26 wrMisc-1.12.0/wrMisc/R/matchMatrixLinesToRef.R | 207 ++- wrMisc-1.12.0/wrMisc/R/matchNamesWithReverseParts.R | 10 wrMisc-1.12.0/wrMisc/R/matchSampToPairw.R | 11 wrMisc-1.12.0/wrMisc/R/matr2list.R | 7 wrMisc-1.12.0/wrMisc/R/mergeMatrices.R | 30 wrMisc-1.12.0/wrMisc/R/mergeSelCol.R | 87 - wrMisc-1.12.0/wrMisc/R/mergeW2.R | 13 wrMisc-1.12.0/wrMisc/R/minDiff.R | 92 - wrMisc-1.12.0/wrMisc/R/multiCharReplace.R | 36 wrMisc-1.12.0/wrMisc/R/multiMatch.R | 32 wrMisc-1.12.0/wrMisc/R/nNonNumChar.R | 47 wrMisc-1.12.0/wrMisc/R/normalizeThis.R | 85 + wrMisc-1.12.0/wrMisc/R/numPairDeColNames.R | 19 wrMisc-1.12.0/wrMisc/R/orderMatrToRef.R | 7 wrMisc-1.12.0/wrMisc/R/organizeAsListOfRepl.R | 50 wrMisc-1.12.0/wrMisc/R/packageDownloadStat.R | 4 wrMisc-1.12.0/wrMisc/R/partUnlist.R | 2 wrMisc-1.12.0/wrMisc/R/partialDist.R | 111 + wrMisc-1.12.0/wrMisc/R/pasteC.R | 80 + wrMisc-1.12.0/wrMisc/R/presenceFilt.R | 41 wrMisc-1.12.0/wrMisc/R/ratioAllComb.R | 136 +- wrMisc-1.12.0/wrMisc/R/ratioToPpm.R | 28 wrMisc-1.12.0/wrMisc/R/readCsvBatch.R | 33 wrMisc-1.12.0/wrMisc/R/readTabulatedBatch.R | 23 wrMisc-1.12.0/wrMisc/R/renameColumns.R | 66 - wrMisc-1.12.0/wrMisc/R/replicateStructure.R | 215 ++- wrMisc-1.12.0/wrMisc/R/rmEnumeratorName.R |only wrMisc-1.12.0/wrMisc/R/rowCVs.R | 10 wrMisc-1.12.0/wrMisc/R/rowGrpCV.R | 37 wrMisc-1.12.0/wrMisc/R/rowGrpMeans.R | 22 wrMisc-1.12.0/wrMisc/R/rowGrpSds.R | 25 wrMisc-1.12.0/wrMisc/R/rowGrpSums.R | 28 wrMisc-1.12.0/wrMisc/R/rowNormalize.R | 104 + wrMisc-1.12.0/wrMisc/R/rowSEMs.R | 10 wrMisc-1.12.0/wrMisc/R/scaleXY.R | 21 wrMisc-1.12.0/wrMisc/R/searchDataPairs.R | 2 wrMisc-1.12.0/wrMisc/R/searchLinesAtGivenSlope.R | 179 ++- wrMisc-1.12.0/wrMisc/R/singleLineAnova.R | 21 wrMisc-1.12.0/wrMisc/R/sortBy2CategorAnd1intCol.R | 18 wrMisc-1.12.0/wrMisc/R/sortByNRepeated.R | 6 wrMisc-1.12.0/wrMisc/R/stableMode.R | 16 wrMisc-1.12.0/wrMisc/R/standardW.R | 14 wrMisc-1.12.0/wrMisc/R/sumNAperGroup.R | 12 wrMisc-1.12.0/wrMisc/R/summarizeCols.R | 28 wrMisc-1.12.0/wrMisc/R/t.testAllInd.R | 16 wrMisc-1.12.0/wrMisc/R/tableToPlot.R | 22 wrMisc-1.12.0/wrMisc/R/test2factLimma.R | 2 wrMisc-1.12.0/wrMisc/R/treatTxtDuplicates.R | 15 wrMisc-1.12.0/wrMisc/R/trimRedundText.R | 75 + wrMisc-1.12.0/wrMisc/R/unifyEnumerator.R | 12 wrMisc-1.12.0/wrMisc/R/uniqCountReport.R | 38 wrMisc-1.12.0/wrMisc/R/writeCsv.R | 21 wrMisc-1.12.0/wrMisc/inst/doc/wrMiscVignette1.R | 15 wrMisc-1.12.0/wrMisc/inst/doc/wrMiscVignette1.Rmd | 47 wrMisc-1.12.0/wrMisc/inst/doc/wrMiscVignette1.html | 910 ++++++++-------- wrMisc-1.12.0/wrMisc/man/XYToDiffPpm.Rd | 12 wrMisc-1.12.0/wrMisc/man/addBeforFileExtension.Rd | 15 wrMisc-1.12.0/wrMisc/man/adjBy2ptReg.Rd | 22 wrMisc-1.12.0/wrMisc/man/checkStrictOrder.Rd | 2 wrMisc-1.12.0/wrMisc/man/checkVectLength.Rd | 11 wrMisc-1.12.0/wrMisc/man/combineByEitherFactor.Rd | 25 wrMisc-1.12.0/wrMisc/man/cutArrayInCluLike.Rd | 10 wrMisc-1.12.0/wrMisc/man/dot-addLetterWoLast.Rd |only wrMisc-1.12.0/wrMisc/man/dot-allRatioMatr1to2.Rd |only wrMisc-1.12.0/wrMisc/man/dot-allRatios.Rd |only wrMisc-1.12.0/wrMisc/man/dot-arrLstMean.Rd |only wrMisc-1.12.0/wrMisc/man/dot-arrLstSEM.Rd |only wrMisc-1.12.0/wrMisc/man/dot-asDF2.Rd |only wrMisc-1.12.0/wrMisc/man/dot-breakInSer.Rd |only wrMisc-1.12.0/wrMisc/man/dot-bringToCtr.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkArgNa.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkConsistentArrList.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkConvt2Vect.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkFactor.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkFileNameExtensions.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkLegendLoc.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkLmConfInt.Rd |only wrMisc-1.12.0/wrMisc/man/dot-checkRegrArguments.Rd |only wrMisc-1.12.0/wrMisc/man/dot-chooseGrpCol.Rd |only wrMisc-1.12.0/wrMisc/man/dot-combineListAnnot.Rd |only wrMisc-1.12.0/wrMisc/man/dot-compareByDiff.Rd |only wrMisc-1.12.0/wrMisc/man/dot-compareByLogRatio.Rd |only wrMisc-1.12.0/wrMisc/man/dot-compareByPPM.Rd |only wrMisc-1.12.0/wrMisc/man/dot-complCols.Rd |only wrMisc-1.12.0/wrMisc/man/dot-composeCallName.Rd |only wrMisc-1.12.0/wrMisc/man/dot-convertMatrToNum.Rd |only wrMisc-1.12.0/wrMisc/man/dot-convertNa.Rd |only wrMisc-1.12.0/wrMisc/man/dot-corDuplItemsByIncrem.Rd |only wrMisc-1.12.0/wrMisc/man/dot-cutAtSearch.Rd |only wrMisc-1.12.0/wrMisc/man/dot-cutStr.Rd |only wrMisc-1.12.0/wrMisc/man/dot-datSlope.Rd |only wrMisc-1.12.0/wrMisc/man/dot-extrNAneighb.Rd |only wrMisc-1.12.0/wrMisc/man/dot-extrNumHeadingCap.Rd |only wrMisc-1.12.0/wrMisc/man/dot-extrNumHeadingSepChar.Rd |only wrMisc-1.12.0/wrMisc/man/dot-filtSize.Rd |only wrMisc-1.12.0/wrMisc/man/dot-filterNetw.Rd |only wrMisc-1.12.0/wrMisc/man/dot-filterSw.Rd |only wrMisc-1.12.0/wrMisc/man/dot-findBorderOverlaps.Rd |only wrMisc-1.12.0/wrMisc/man/dot-firstMin.Rd |only wrMisc-1.12.0/wrMisc/man/dot-fuse2ArrBy2ndDim.Rd |only wrMisc-1.12.0/wrMisc/man/dot-getAmean.Rd |only wrMisc-1.12.0/wrMisc/man/dot-getAmean2.Rd |only wrMisc-1.12.0/wrMisc/man/dot-getMvalue2.Rd |only wrMisc-1.12.0/wrMisc/man/dot-growTree.Rd |only wrMisc-1.12.0/wrMisc/man/dot-insp1dimByClustering.Rd |only wrMisc-1.12.0/wrMisc/man/dot-inspectHeader.Rd |only wrMisc-1.12.0/wrMisc/man/dot-keepCenter1d.Rd |only wrMisc-1.12.0/wrMisc/man/dot-keepFiniteCol.Rd |only wrMisc-1.12.0/wrMisc/man/dot-mayBeNum.Rd |only wrMisc-1.12.0/wrMisc/man/dot-medianSpecGrp.Rd |only wrMisc-1.12.0/wrMisc/man/dot-mergeMatrices.Rd |only wrMisc-1.12.0/wrMisc/man/dot-minDif.Rd |only wrMisc-1.12.0/wrMisc/man/dot-neigbDis.Rd |only wrMisc-1.12.0/wrMisc/man/dot-normConstSlope.Rd |only wrMisc-1.12.0/wrMisc/man/dot-normalize.Rd |only wrMisc-1.12.0/wrMisc/man/dot-offCenter.Rd |only wrMisc-1.12.0/wrMisc/man/dot-pasteCols.Rd |only wrMisc-1.12.0/wrMisc/man/dot-plotCountPie.Rd |only wrMisc-1.12.0/wrMisc/man/dot-plusLowerCaps.Rd |only wrMisc-1.12.0/wrMisc/man/dot-predRes.Rd |only wrMisc-1.12.0/wrMisc/man/dot-raiseColLowest.Rd |only wrMisc-1.12.0/wrMisc/man/dot-removeCol.Rd |only wrMisc-1.12.0/wrMisc/man/dot-removeEmptyCol.Rd |only wrMisc-1.12.0/wrMisc/man/dot-replSpecChar.Rd |only wrMisc-1.12.0/wrMisc/man/dot-retain1stPart.Rd |only wrMisc-1.12.0/wrMisc/man/dot-rowGrpCV.Rd |only wrMisc-1.12.0/wrMisc/man/dot-rowGrpMeans.Rd |only wrMisc-1.12.0/wrMisc/man/dot-rowGrpSds.Rd |only wrMisc-1.12.0/wrMisc/man/dot-rowGrpSums.Rd |only wrMisc-1.12.0/wrMisc/man/dot-rowNorm.Rd |only wrMisc-1.12.0/wrMisc/man/dot-rowNormFact.Rd |only wrMisc-1.12.0/wrMisc/man/dot-scale01.Rd |only wrMisc-1.12.0/wrMisc/man/dot-scaleSpecGrp.Rd |only wrMisc-1.12.0/wrMisc/man/dot-scaleXY.Rd |only wrMisc-1.12.0/wrMisc/man/dot-seqCutStr.Rd |only wrMisc-1.12.0/wrMisc/man/dot-setLowestTo.Rd |only wrMisc-1.12.0/wrMisc/man/dot-sortMid.Rd |only wrMisc-1.12.0/wrMisc/man/dot-stackArray.Rd |only wrMisc-1.12.0/wrMisc/man/dot-summarizeCols.Rd |only wrMisc-1.12.0/wrMisc/man/dot-trimFromEnd.Rd |only wrMisc-1.12.0/wrMisc/man/dot-trimFromStart.Rd |only wrMisc-1.12.0/wrMisc/man/dot-trimLeft.Rd |only wrMisc-1.12.0/wrMisc/man/dot-trimRight.Rd |only wrMisc-1.12.0/wrMisc/man/dot-uniqueWName.Rd |only wrMisc-1.12.0/wrMisc/man/dot-vector2Matr.Rd |only wrMisc-1.12.0/wrMisc/man/equLenNumber.Rd | 6 wrMisc-1.12.0/wrMisc/man/extrSpcText.Rd | 3 wrMisc-1.12.0/wrMisc/man/filt3dimArr.Rd | 38 wrMisc-1.12.0/wrMisc/man/filtSizeUniq.Rd | 5 wrMisc-1.12.0/wrMisc/man/filterNetw.Rd | 3 wrMisc-1.12.0/wrMisc/man/findCloseMatch.Rd | 25 wrMisc-1.12.0/wrMisc/man/firstLineOfDat.Rd | 6 wrMisc-1.12.0/wrMisc/man/firstOfRepLines.Rd | 15 wrMisc-1.12.0/wrMisc/man/firstOfRepeated.Rd | 6 wrMisc-1.12.0/wrMisc/man/fusePairs.Rd | 8 wrMisc-1.12.0/wrMisc/man/getValuesByUnique.Rd | 5 wrMisc-1.12.0/wrMisc/man/gitDataUrl.Rd | 12 wrMisc-1.12.0/wrMisc/man/htmlSpecCharConv.Rd | 8 wrMisc-1.12.0/wrMisc/man/levIndex.Rd | 12 wrMisc-1.12.0/wrMisc/man/linModelSelect.Rd | 3 wrMisc-1.12.0/wrMisc/man/linRegrParamAndPVal.Rd | 15 wrMisc-1.12.0/wrMisc/man/listBatchReplace.Rd | 13 wrMisc-1.12.0/wrMisc/man/listGroupsByNames.Rd | 6 wrMisc-1.12.0/wrMisc/man/lmSelClu.Rd | 5 wrMisc-1.12.0/wrMisc/man/lrbind.Rd | 6 wrMisc-1.12.0/wrMisc/man/makeMAList.Rd | 5 wrMisc-1.12.0/wrMisc/man/makeNRedMatr.Rd | 8 wrMisc-1.12.0/wrMisc/man/matchMatrixLinesToRef.Rd | 31 wrMisc-1.12.0/wrMisc/man/matchNamesWithReverseParts.Rd | 13 wrMisc-1.12.0/wrMisc/man/matchSampToPairw.Rd | 13 wrMisc-1.12.0/wrMisc/man/matr2list.Rd | 4 wrMisc-1.12.0/wrMisc/man/mergeSelCol.Rd | 22 wrMisc-1.12.0/wrMisc/man/mergeSelCol3.Rd | 18 wrMisc-1.12.0/wrMisc/man/minDiff.Rd | 27 wrMisc-1.12.0/wrMisc/man/multiCharReplace.Rd | 17 wrMisc-1.12.0/wrMisc/man/multiMatch.Rd | 3 wrMisc-1.12.0/wrMisc/man/nNonNumChar.Rd | 4 wrMisc-1.12.0/wrMisc/man/normalizeThis.Rd | 4 wrMisc-1.12.0/wrMisc/man/numPairDeColNames.Rd | 3 wrMisc-1.12.0/wrMisc/man/organizeAsListOfRepl.Rd | 12 wrMisc-1.12.0/wrMisc/man/partialDist.Rd | 11 wrMisc-1.12.0/wrMisc/man/pasteC.Rd | 4 wrMisc-1.12.0/wrMisc/man/presenceFilt.Rd | 7 wrMisc-1.12.0/wrMisc/man/ratioAllComb.Rd | 8 wrMisc-1.12.0/wrMisc/man/ratioToPpm.Rd | 19 wrMisc-1.12.0/wrMisc/man/renameColumns.Rd | 4 wrMisc-1.12.0/wrMisc/man/replicateStructure.Rd | 13 wrMisc-1.12.0/wrMisc/man/rmEnumeratorName.Rd |only wrMisc-1.12.0/wrMisc/man/rowCVs.Rd | 6 wrMisc-1.12.0/wrMisc/man/rowGrpCV.Rd | 8 wrMisc-1.12.0/wrMisc/man/rowGrpSums.Rd | 4 wrMisc-1.12.0/wrMisc/man/rowSEMs.Rd | 4 wrMisc-1.12.0/wrMisc/man/scaleXY.Rd | 1 wrMisc-1.12.0/wrMisc/man/searchLinesAtGivenSlope.Rd | 7 wrMisc-1.12.0/wrMisc/man/singleLineAnova.Rd | 22 wrMisc-1.12.0/wrMisc/man/sortBy2CategorAnd1IntCol.Rd | 9 wrMisc-1.12.0/wrMisc/man/stableMode.Rd | 6 wrMisc-1.12.0/wrMisc/man/standardW.Rd | 17 wrMisc-1.12.0/wrMisc/man/sumNAperGroup.Rd | 17 wrMisc-1.12.0/wrMisc/man/tTestAllVal.Rd | 18 wrMisc-1.12.0/wrMisc/man/tableToPlot.Rd | 8 wrMisc-1.12.0/wrMisc/man/treatTxtDuplicates.Rd | 5 wrMisc-1.12.0/wrMisc/man/unifyEnumerator.Rd | 3 wrMisc-1.12.0/wrMisc/man/uniqCountReport.Rd | 5 wrMisc-1.12.0/wrMisc/vignettes/wrMiscVignette1.Rmd | 47 249 files changed, 3917 insertions(+), 2138 deletions(-)
Title: A Simple Way to Specify Symmetric, Block Diagonal Matrices
Description: Provides a simple mechanism to specify a symmetric block
diagonal matrices (often used for covariance matrices). This is based
on the domain specific language implemented in 'nlmixr2' but expanded
to create matrices in R generally instead of specifying parts of
matrices to estimate.
Author: Matthew L. Fidler [aut, cre]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between lotri versions 0.4.2 dated 2022-06-18 and 0.4.3 dated 2023-03-20
DESCRIPTION | 6 +-- MD5 | 15 ++++---- NEWS.md | 4 ++ R/as.lotri.R | 15 +++++--- R/lotri.R | 43 ++++++++++++++++++++----- build/vignette.rds |binary inst/doc/lotri-motivation.html | 33 ++++++++++++------- tests/testthat/test-as.lotri.R | 68 ++++++++++++++++++++++++++++++++++++++++ tests/testthat/test-bad-lotri.R |only 9 files changed, 149 insertions(+), 35 deletions(-)
Title: GBIF Dataset Explorer
Description: Functions to explore datasets from the Global Biodiversity Information Facility (GBIF - <https://www.gbif.org/>) using a Shiny interface.
Author: Luis J Villanueva [aut, cre]
Maintainer: Luis J Villanueva <villanueval@si.edu>
Diff between gde versions 0.2.0 dated 2021-11-23 and 0.2.1 dated 2023-03-20
DESCRIPTION | 10 MD5 | 30 NAMESPACE | 59 - NEWS | 22 R/globals.R | 4 R/launchApp.R | 34 R/load_gbif_dwc.R | 612 +++++++------- R/shinyAppServer.R | 1766 +++++++++++++++++++++--------------------- R/shinyAppUI.R | 258 +++--- README.md | 53 - inst/gde-screenshot-thumb.png |only inst/gde-screenshot.png |only inst/shinyApp/app.R | 4 man/launchApp.Rd | 28 man/load_gbif_dwc.Rd | 46 - man/shinyAppServer.Rd | 36 man/shinyAppUI.Rd | 32 17 files changed, 1500 insertions(+), 1494 deletions(-)
Title: Multivariate Conditional Volatility Modelling and Forecasting
Description: Methods and tools for estimating, simulating and forecasting of so-called BEKK-models (named after Baba, Engle, Kraft and Kroner) based on the fast Berndt–Hall–Hall–Hausman (BHHH) algorithm described in Hafner and Herwartz (2008) <doi:10.1007/s00184-007-0130-y>.
Author: Markus J. Fuelle [aut, cre],
Alexander Lange [aut],
Christian M. Hafner [aut],
Helmut Herwartz [aut]
Maintainer: Markus J. Fuelle <fuelle@uni-goettingen.de>
Diff between BEKKs versions 1.4.1 dated 2022-12-18 and 1.4.2 dated 2023-03-20
DESCRIPTION | 8 +- MD5 | 28 ++++----- NAMESPACE | 2 R/Portmanteau_test.R | 4 - R/bekk_fit.R | 25 +++----- R/bekk_fit_methods.R | 140 +++++++++++++++++++++++++++------------------- build/BEKKs.pdf |binary man/bekk_fit_methods.Rd | 91 +++++++++++++++-------------- src/BekkFunctions.cpp | 2 src/BekkSim.cpp | 2 src/IndicatorFunction.cpp | 4 - src/Makevars | 2 src/Makevars.win | 6 - src/ScalarBEKK.cpp | 2 src/YLagCr.cpp | 2 15 files changed, 173 insertions(+), 145 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-22 0.9.3
2022-03-25 0.9.2
2021-12-10 0.9.1
2021-06-09 0.8.2
2020-05-07 0.7.1
2020-03-25 0.6.5
2020-03-20 0.6.4
Title: R Interface for Apache Sedona
Description: R interface for 'Apache Sedona' based on 'sparklyr'
(<https://sedona.apache.org>).
Author: Apache Sedona [aut, cre],
Jia Yu [ctb, cph],
Yitao Li [aut, cph] ,
The Apache Software Foundation [cph],
RStudio [cph]
Maintainer: Apache Sedona <private@sedona.apache.org>
Diff between apache.sedona versions 1.3.1 dated 2022-12-23 and 1.4.0 dated 2023-03-20
apache.sedona-1.3.1/apache.sedona/man/as.spark.dataframe.Rd |only apache.sedona-1.3.1/apache.sedona/man/as_spark_dataframe.Rd |only apache.sedona-1.3.1/apache.sedona/man/sedona_read_geojson_to_typed_rdd.Rd |only apache.sedona-1.3.1/apache.sedona/man/sedona_read_shapefile.Rd |only apache.sedona-1.3.1/apache.sedona/man/sedona_read_wkb.Rd |only apache.sedona-1.3.1/apache.sedona/man/sedona_read_wkt.Rd |only apache.sedona-1.3.1/apache.sedona/man/sedona_spatial_rdd_serialization_routine.Rd |only apache.sedona-1.3.1/apache.sedona/man/sedona_write_geojson.Rd |only apache.sedona-1.3.1/apache.sedona/man/sedona_write_wkt.Rd |only apache.sedona-1.4.0/apache.sedona/DESCRIPTION | 16 apache.sedona-1.4.0/apache.sedona/MD5 | 77 - apache.sedona-1.4.0/apache.sedona/NAMESPACE | 11 apache.sedona-1.4.0/apache.sedona/R/apache.sedona-package.R |only apache.sedona-1.4.0/apache.sedona/R/data_interface.R | 505 ++++++---- apache.sedona-1.4.0/apache.sedona/R/dependencies.R | 39 apache.sedona-1.4.0/apache.sedona/R/imports.R | 1 apache.sedona-1.4.0/apache.sedona/R/sdf_interface.R | 59 - apache.sedona-1.4.0/apache.sedona/R/spatial_join_op.R | 1 apache.sedona-1.4.0/apache.sedona/R/spatial_partitioner.R | 6 apache.sedona-1.4.0/apache.sedona/R/spatial_queries.R | 17 apache.sedona-1.4.0/apache.sedona/R/spatial_rdd.R | 1 apache.sedona-1.4.0/apache.sedona/R/viz.R | 3 apache.sedona-1.4.0/apache.sedona/README.md |only apache.sedona-1.4.0/apache.sedona/man/apache.sedona-package.Rd |only apache.sedona-1.4.0/apache.sedona/man/figures |only apache.sedona-1.4.0/apache.sedona/man/sdf_register.spatial_rdd.Rd | 24 apache.sedona-1.4.0/apache.sedona/man/sedona_read_dsv_to_typed_rdd.Rd | 12 apache.sedona-1.4.0/apache.sedona/man/sedona_read_geojson.Rd | 53 - apache.sedona-1.4.0/apache.sedona/man/sedona_read_shapefile_to_typed_rdd.Rd | 40 apache.sedona-1.4.0/apache.sedona/man/sedona_render_choropleth_map.Rd | 4 apache.sedona-1.4.0/apache.sedona/man/sedona_render_heatmap.Rd | 4 apache.sedona-1.4.0/apache.sedona/man/sedona_render_scatter_plot.Rd | 4 apache.sedona-1.4.0/apache.sedona/man/sedona_save_spatial_rdd.Rd | 12 apache.sedona-1.4.0/apache.sedona/man/sedona_spatial_join.Rd | 28 apache.sedona-1.4.0/apache.sedona/man/sedona_spatial_join_count_by_key.Rd | 28 apache.sedona-1.4.0/apache.sedona/man/sedona_spatial_rdd_aggregation_routine.Rd | 1 apache.sedona-1.4.0/apache.sedona/man/sedona_spatial_rdd_data_source.Rd | 5 apache.sedona-1.4.0/apache.sedona/man/sedona_visualization_routines.Rd | 5 apache.sedona-1.4.0/apache.sedona/man/sedona_write_wkb.Rd | 27 apache.sedona-1.4.0/apache.sedona/man/spark_read_shapefile.Rd |only apache.sedona-1.4.0/apache.sedona/man/spark_write_geojson.Rd |only apache.sedona-1.4.0/apache.sedona/man/spatial_join_op.Rd | 23 apache.sedona-1.4.0/apache.sedona/man/spatial_query.Rd | 1 43 files changed, 610 insertions(+), 397 deletions(-)
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013) <doi:10.1016/j.mbs.2012.10.005>;
artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <https://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph]
,
Emmanuel Paradis [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 1.9.0 dated 2022-11-28 and 1.9.1 dated 2023-03-20
DESCRIPTION | 10 +- MD5 | 32 ++++---- NEWS.md | 12 +++ R/ImposeConstraint.R | 4 + R/parse_files.R | 42 +++++++++-- R/tree_numbering.R | 4 - R/tree_write.R | 20 +++-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 27 ++++--- inst/doc/filesystem-navigation.html | 4 - inst/doc/load-data.html | 4 - inst/doc/load-trees.html | 4 - man/MatrixToPhyDat.Rd | 20 +++++ man/TrivialTree.Rd | 120 ++++++++++++++++----------------- tests/testthat/test-ImposeConstraint.R | 17 +++- tests/testthat/test-parsers.R | 20 ++++- 17 files changed, 218 insertions(+), 122 deletions(-)
Title: Get Silhouettes of Organisms from PhyloPic
Description: Work with the PhyloPic Web Service (<http://api-docs.phylopic.org/v2/>)
to fetch silhouette images of organisms. Includes functions for adding
silhouettes to both base R plots and ggplot2 plots.
Author: William Gearty [aut, cre] ,
Lewis A. Jones [aut] ,
Scott Chamberlain [aut] ,
David Miller [ctb]
Maintainer: William Gearty <willgearty@gmail.com>
Diff between rphylopic versions 0.3.0 dated 2020-06-04 and 1.0.0 dated 2023-03-20
rphylopic-0.3.0/rphylopic/LICENSE |only rphylopic-0.3.0/rphylopic/R/get_names.R |only rphylopic-0.3.0/rphylopic/R/globals.R |only rphylopic-0.3.0/rphylopic/R/image.R |only rphylopic-0.3.0/rphylopic/R/list_images.R |only rphylopic-0.3.0/rphylopic/R/minimal_supertaxa.R |only rphylopic-0.3.0/rphylopic/R/name.R |only rphylopic-0.3.0/rphylopic/R/name_sets.R |only rphylopic-0.3.0/rphylopic/R/phylopic_count.R |only rphylopic-0.3.0/rphylopic/R/save_png.R |only rphylopic-0.3.0/rphylopic/R/search_images.R |only rphylopic-0.3.0/rphylopic/R/search_text.R |only rphylopic-0.3.0/rphylopic/R/ubio.R |only rphylopic-0.3.0/rphylopic/R/zzz.R |only rphylopic-0.3.0/rphylopic/build |only rphylopic-0.3.0/rphylopic/inst/doc |only rphylopic-0.3.0/rphylopic/inst/ignore |only rphylopic-0.3.0/rphylopic/man/figures/leaflet.png |only rphylopic-0.3.0/rphylopic/man/figures/unnamed-chunk-17-1.png |only rphylopic-0.3.0/rphylopic/man/figures/unnamed-chunk-18-1.png |only rphylopic-0.3.0/rphylopic/man/figures/unnamed-chunk-19-1.png |only rphylopic-0.3.0/rphylopic/man/get_names.Rd |only rphylopic-0.3.0/rphylopic/man/image.Rd |only rphylopic-0.3.0/rphylopic/man/list_images.Rd |only rphylopic-0.3.0/rphylopic/man/minimal_supertaxa.Rd |only rphylopic-0.3.0/rphylopic/man/name.Rd |only rphylopic-0.3.0/rphylopic/man/nameset.Rd |only rphylopic-0.3.0/rphylopic/man/phylopic_count.Rd |only rphylopic-0.3.0/rphylopic/man/plot_phylopic_base-defunct.Rd |only rphylopic-0.3.0/rphylopic/man/recolor_phylopic.Rd |only rphylopic-0.3.0/rphylopic/man/rphylopic.Rd |only rphylopic-0.3.0/rphylopic/man/save_png.Rd |only rphylopic-0.3.0/rphylopic/man/search_images.Rd |only rphylopic-0.3.0/rphylopic/man/search_text.Rd |only rphylopic-0.3.0/rphylopic/man/theme_phylo_blank2.Rd |only rphylopic-0.3.0/rphylopic/man/ubio.Rd |only rphylopic-0.3.0/rphylopic/tests/fixtures |only rphylopic-0.3.0/rphylopic/tests/testthat/helper-rphylopic.R |only rphylopic-0.3.0/rphylopic/tests/testthat/test-get_names.R |only rphylopic-0.3.0/rphylopic/tests/testthat/test-list_images.R |only rphylopic-0.3.0/rphylopic/tests/testthat/test-nameset.R |only rphylopic-0.3.0/rphylopic/vignettes |only rphylopic-1.0.0/rphylopic/DESCRIPTION | 56 - rphylopic-1.0.0/rphylopic/MD5 | 103 -- rphylopic-1.0.0/rphylopic/NAMESPACE | 88 - rphylopic-1.0.0/rphylopic/NEWS.md | 70 - rphylopic-1.0.0/rphylopic/R/add_phylopic.r | 190 ++- rphylopic-1.0.0/rphylopic/R/add_phylopic_base.r | 198 ++-- rphylopic-1.0.0/rphylopic/R/get_attribution.R |only rphylopic-1.0.0/rphylopic/R/get_phylopic.R |only rphylopic-1.0.0/rphylopic/R/get_uuid.R |only rphylopic-1.0.0/rphylopic/R/inset.R |only rphylopic-1.0.0/rphylopic/R/pick_phylopic.R |only rphylopic-1.0.0/rphylopic/R/recolor_phylopic.r | 62 - rphylopic-1.0.0/rphylopic/R/rphylopic-package.R | 35 rphylopic-1.0.0/rphylopic/R/save_phylopic.R |only rphylopic-1.0.0/rphylopic/R/zzz.r |only rphylopic-1.0.0/rphylopic/README.md | 494 ++-------- rphylopic-1.0.0/rphylopic/inst/CITATION |only rphylopic-1.0.0/rphylopic/man/add_phylopic.Rd | 134 +- rphylopic-1.0.0/rphylopic/man/add_phylopic_base.Rd | 157 +-- rphylopic-1.0.0/rphylopic/man/figures/logo.png |binary rphylopic-1.0.0/rphylopic/man/get_attribution.Rd |only rphylopic-1.0.0/rphylopic/man/get_phylopic.Rd |only rphylopic-1.0.0/rphylopic/man/get_uuid.Rd |only rphylopic-1.0.0/rphylopic/man/phylopic_inset.Rd |only rphylopic-1.0.0/rphylopic/man/pick_phylopic.Rd |only rphylopic-1.0.0/rphylopic/man/recolor_png.Rd |only rphylopic-1.0.0/rphylopic/man/rphylopic-package.Rd |only rphylopic-1.0.0/rphylopic/man/save_phylopic.Rd |only rphylopic-1.0.0/rphylopic/tests/test-all.R | 4 rphylopic-1.0.0/rphylopic/tests/testthat/Rplots.pdf |only rphylopic-1.0.0/rphylopic/tests/testthat/_snaps |only rphylopic-1.0.0/rphylopic/tests/testthat/helper-vdiffr.R |only rphylopic-1.0.0/rphylopic/tests/testthat/test-add_phylopic.R |only rphylopic-1.0.0/rphylopic/tests/testthat/test-add_phylopic_base.R |only rphylopic-1.0.0/rphylopic/tests/testthat/test-get_attribution.R |only rphylopic-1.0.0/rphylopic/tests/testthat/test-get_phylopic.R |only rphylopic-1.0.0/rphylopic/tests/testthat/test-get_uuid.R |only rphylopic-1.0.0/rphylopic/tests/testthat/test-pick_phylo.R |only rphylopic-1.0.0/rphylopic/tests/testthat/test-save_phylopic.R |only 81 files changed, 777 insertions(+), 814 deletions(-)
Title: Tools for Analyzing Mixed Effect Regression Models
Description: Provides methods for extracting results from mixed-effect model
objects fit with the 'lme4' package. Allows construction of prediction intervals
efficiently from large scale linear and generalized linear mixed-effects models.
This method draws from the simulation framework used in the Gelman and Hill (2007) textbook:
Data Analysis Using Regression and Multilevel/Hierarchical Models.
Author: Jared E. Knowles [aut, cre],
Carl Frederick [aut],
Alex Whitworth [ctb]
Maintainer: Jared E. Knowles <jared@civilytics.com>
Diff between merTools versions 0.5.2 dated 2020-06-23 and 0.6.1 dated 2023-03-20
DESCRIPTION | 18 MD5 | 65 - NEWS.md | 9 R/REmargins.R | 2 R/helpers.R | 7 R/merData.R | 2 R/merList.R | 12 R/merPlots.R | 6 R/merPredict.R | 25 R/merSubstEff.R | 2 R/merTools-package.r | 2 R/subBoot.R | 8 README.md | 264 ++-- build/vignette.rds |binary inst/doc/Using_predictInterval.html | 817 +++++++++------ inst/doc/imputation.html | 1480 ++++++++++++++-------------- inst/doc/marginal_effects.html | 236 ++-- inst/doc/merToolsIntro.html | 752 ++++++++------ man/REimpact.Rd | 2 man/REmargins.Rd | 2 man/VarCorr.merModList.Rd | 69 - man/figures/README_FEsimPlot-1.png |binary man/figures/README_reImpactplot-1.png |binary man/figures/README_reSimplot-1.png |binary man/figures/README_substImpactPredict-1.png |binary man/figures/README_unnamed-chunk-12-1.png |only man/figures/README_unnamed-chunk-13-1.png |binary man/figures/README_unnamed-chunk-14-1.png |only man/figures/README_unnamed-chunk-15-1.png |binary man/figures/README_unnamed-chunk-7-1.png |only man/figures/README_unnamed-chunk-8-1.png |binary man/figures/README_unnamed-chunk-9-1.png |binary man/hsb.Rd | 90 - tests/testthat/test-helpers.R | 2 tests/testthat/test-predict.R | 39 35 files changed, 2205 insertions(+), 1706 deletions(-)
Title: R Interface to 'Keras'
Description: Interface to 'Keras' <https://keras.io>, a high-level neural
networks 'API'. 'Keras' was developed with a focus on enabling fast experimentation,
supports both convolution based networks and recurrent networks (as well as
combinations of the two), and runs seamlessly on both 'CPU' and 'GPU' devices.
Author: Tomasz Kalinowski [ctb, cph, cre],
Daniel Falbel [ctb, cph],
JJ Allaire [aut, cph],
Francois Chollet [aut, cph],
RStudio [ctb, cph, fnd],
Google [ctb, cph, fnd],
Yuan Tang [ctb, cph] ,
Wouter Van Der Bijl [ctb, cph],
Martin Studer [ctb, cph],
Sigrid [...truncated...]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between keras versions 2.11.0 dated 2022-12-20 and 2.11.1 dated 2023-03-20
keras-2.11.0/keras/tests/testthat/digit2.jpeg |only keras-2.11.0/keras/tests/testthat/digit_resized.jpeg |only keras-2.11.1/keras/DESCRIPTION | 10 +++++----- keras-2.11.1/keras/MD5 | 10 ++++------ keras-2.11.1/keras/NEWS.md | 4 ++++ keras-2.11.1/keras/R/layer-custom.R | 4 ++-- keras-2.11.1/keras/build/vignette.rds |binary 7 files changed, 15 insertions(+), 13 deletions(-)
Title: Model Selection and Multimodel Inference Based on (Q)AIC(c)
Description: Functions to implement model selection and multimodel inference based on Akaike's information criterion (AIC) and the second-order AIC (AICc), as well as their quasi-likelihood counterparts (QAIC, QAICc) from various model object classes. The package implements classic model averaging for a given parameter of interest or predicted values, as well as a shrinkage version of model averaging parameter estimates or effect sizes. The package includes diagnostics and goodness-of-fit statistics for certain model types including those of 'unmarkedFit' classes estimating demographic parameters after accounting for imperfect detection probabilities. Some functions also allow the creation of model selection tables for Bayesian models of the 'bugs', 'rjags', and 'jagsUI' classes. Functions also implement model selection using BIC. Objects following model selection and multimodel inference can be formatted to LaTeX using 'xtable' methods included in the package.
Author: Marc J. Mazerolle <marc.mazerolle@sbf.ulaval.ca>
Maintainer: Marc J. Mazerolle <marc.mazerolle@sbf.ulaval.ca>
Diff between AICcmodavg versions 2.3-1 dated 2020-08-26 and 2.3-2 dated 2023-03-20
DESCRIPTION | 8 MD5 | 61 - R/AICc.R | 29 R/countDist.R | 956 +++++++++++++++++----------- R/countHist.R | 1257 ++++++++++++++++++++++---------------- R/detHist.R | 334 +++++++--- R/detTime.R | 337 ++++++---- R/mb.gof.test.R | 446 ++++++++----- R/modavgEffect.R | 313 +++++++++ R/predictSE.R | 79 +- R/xtable.R | 61 - build/vignette.rds |binary inst/CITATION | 24 inst/NEWS | 18 inst/NEWS.Rd | 31 inst/doc/AICcmodavg-unmarked.R |only inst/doc/AICcmodavg-unmarked.Rnw |only inst/doc/AICcmodavg-unmarked.pdf |only inst/doc/AICcmodavg.Rnw | 4 inst/doc/AICcmodavg.pdf |binary man/AICc.Rd | 5 man/AICcCustom.Rd | 13 man/AICcmodavg-package.Rd | 4 man/bullfrog.Rd | 4 man/countDist.Rd | 8 man/countHist.Rd | 6 man/detHist.Rd | 11 man/detTime.Rd | 9 man/mb.gof.test.Rd | 7 man/xtable.Rd | 73 +- vignettes/AICcmodavg-unmarked.Rnw |only vignettes/AICcmodavg.Rnw | 4 vignettes/AICcmodavg.bib | 105 +++ vignettes/gofMod3.Rdata |only 34 files changed, 2773 insertions(+), 1434 deletions(-)
Title: Algorithms and Framework for Nonnegative Matrix Factorization
(NMF)
Description: Provides a framework to perform Non-negative Matrix
Factorization (NMF). The package implements a set of already published algorithms
and seeding methods, and provides a framework to test, develop and plug
new/custom algorithms. Most of the built-in algorithms have been optimized
in C++, and the main interface function provides an easy way of performing
parallel computations on multicore machines.
Author: Renaud Gaujoux, Cathal Seoighe
Maintainer: Nicolas Sauwen <nicolas.sauwen@openanalytics.eu>
Diff between NMF versions 0.25 dated 2022-11-18 and 0.26 dated 2023-03-20
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/NMFplots.R | 2 +- R/algorithms-base.R | 2 -- R/data.R | 2 -- R/parallel.R | 10 +++++----- inst/CITATION | 10 +++++----- inst/doc/NMF-vignette.pdf |binary inst/doc/consensus.pdf |binary inst/doc/heatmaps.pdf |binary man/KL-nmf.Rd | 4 ---- man/esGolub.Rd | 3 --- man/profplot.Rd | 2 +- 13 files changed, 28 insertions(+), 39 deletions(-)
Title: Estimate Functional and Stochastic Parameters of Linear Models
with Correlated Residuals
Description: Implements the Generalized Method of Wavelet Moments with Exogenous Inputs estimator (GMWMX) presented in Cucci, D. A., Voirol, L., Kermarrec, G., Montillet, J. P., and Guerrier, S. (2023) <doi:10.1007/s00190-023-01702-8>.
The GMWMX estimator allows to estimate functional and stochastic parameters of linear models with correlated residuals.
The 'gmwmx' package provides functions to estimate, compare and analyze models, utilities to load and work with Global Navigation Satellite System (GNSS) data as well as methods to compare results with the Maximum Likelihood Estimator (MLE) implemented in Hector.
Author: Davide Antonio Cucci [aut],
Lionel Voirol [aut, cre],
Stephane Guerrier [aut],
Jean-Philippe Montillet [ctb],
Gael Kermarrec [ctb]
Maintainer: Lionel Voirol <lionelvoirol@hotmail.com>
Diff between gmwmx versions 1.0.2 dated 2022-09-01 and 1.0.3 dated 2023-03-20
DESCRIPTION | 10 - MD5 | 47 ++++---- NAMESPACE | 1 NEWS.md | 12 +- R/compare_fit.R | 2 R/gen_model.R | 3 R/gmwmx.R | 53 ++++++--- R/hector.R | 13 +- R/model_rw.R |only R/plotting.R | 2 R/print.R | 12 +- README.md | 24 +++- build/vignette.rds |binary inst/doc/load_estimate_compare_models.Rmd | 7 - inst/doc/load_estimate_compare_models.html | 149 +++++++++++++------------ inst/doc/remove_outliers_hector.html | 124 +++++++++++---------- inst/doc/simulate_data.html | 170 +++++++++++++++-------------- inst/doc/simulation_study.html | 124 +++++++++++---------- man/compare_fits.Rd | 2 man/estimate_gmwmx.Rd | 2 man/plot.gnsstsmodel.Rd | 2 man/print.gnsstsmodel.Rd | 4 src/Makevars | 1 src/Makevars.win | 1 vignettes/load_estimate_compare_models.Rmd | 7 - 25 files changed, 440 insertions(+), 332 deletions(-)
Title: Data on Base Packages for Current and Previous Versions of R
Description: Provides a dataset of functions in all base packages of R versions 1.0.1 onwards.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between rcheology versions 4.2.2.0 dated 2022-11-03 and 4.2.3.0 dated 2023-03-20
DESCRIPTION | 6 ++--- MD5 | 14 ++++++------ NEWS.md | 5 ++++ README.md | 36 +++++++++++++++---------------- data/Rversions.rda |binary data/rcheology.rda |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary 8 files changed, 33 insertions(+), 28 deletions(-)
Title: Fast Nearest Neighbor Search Algorithms and Applications
Description: Cover-tree and kd-tree fast k-nearest neighbor search algorithms and related applications
including KNN classification, regression and information measures are implemented.
Author: Alina Beygelzimer, Sham Kakadet and John Langford ,
Sunil Arya and David Mount , Shengqiao Li
Maintainer: Shengqiao Li <lishengqiao@yahoo.com>
Diff between FNN versions 1.1.3.1 dated 2022-05-23 and 1.1.3.2 dated 2023-03-20
DESCRIPTION | 6 +++--- MD5 | 6 +++--- man/get.knn.Rd | 2 +- src/init_FNN.c | 2 +- 4 files changed, 8 insertions(+), 8 deletions(-)
Title: MR Spectroscopy Analysis Tools
Description: Tools for reading, visualising and processing Magnetic Resonance
Spectroscopy data. The package includes methods for spectral fitting: Wilson
(2021) <DOI:10.1002/mrm.28385> and spectral alignment: Wilson (2018)
<DOI:10.1002/mrm.27605>.
Author: Martin Wilson [cre, aut] ,
Yong Wang [ctb],
John Muschelli [ctb]
Maintainer: Martin Wilson <martin@pipegrep.co.uk>
Diff between spant versions 2.9.0 dated 2023-03-03 and 2.10.0 dated 2023-03-20
DESCRIPTION | 8 +- MD5 | 27 ++++---- NAMESPACE | 1 NEWS.md | 8 ++ R/abfit.R | 4 - R/dicom_reader.R | 4 - R/fit_display.R | 14 ++++ R/mrs_data_display.R | 31 +++++++-- R/mrs_read_dicom.R | 89 +++++++++++++++++++++++++++ R/mrs_read_ima.R | 8 ++ R/mrs_read_pfile.R | 112 +++++++++++++++++++++++++++++++++- R/mrs_read_rda.R | 37 ++++++++++- inst/doc/spant-intro.html | 123 +++++++++++++++++++------------------- inst/doc/spant-preprocessing.html | 4 - man/one_page_pdf.Rd |only 15 files changed, 370 insertions(+), 100 deletions(-)
Title: Identify Rogue Taxa in Sets of Phylogenetic Trees
Description: Rogue ("wildcard") taxa are leaves with uncertain phylogenetic
position.
Their position may vary from tree to tree under inference methods that yield a
tree set (e.g. bootstrapping, Bayesian tree searches, maximum parsimony).
The presence of rogue taxa in a tree set can potentially remove all
information from a consensus tree. The information content of a consensus
tree - a function of its resolution and branch support values - can often be
increased by removing rogue taxa.
'Rogue' provides an explicitly information-theoretic approach to rogue
detection (Smith 2022) <doi:10.1093/sysbio/syab099>,
and an interface to 'RogueNaRok' (Aberer et al. 2013)
<doi:10.1093/sysbio/sys078>.
Author: Martin R. Smith [aut, cre, cph]
,
Andre J. Aberer [aut, cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between Rogue versions 2.1.4 dated 2023-01-16 and 2.1.5 dated 2023-03-20
DESCRIPTION | 6 +- MD5 | 14 +++--- NEWS.md | 6 ++ R/stability.R | 2 R/zz_RogueNaRok.R | 2 build/partial.rdb |binary inst/CITATION | 114 +++++++++++++++++++++++++++---------------------- inst/doc/Bayesian.html | 4 - 8 files changed, 84 insertions(+), 64 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-30 0.2-2
2021-09-22 0.2-1
2021-08-05 0.2-0
2020-06-24 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-11-17 0.4.0
2016-09-15 0.3.1
2016-08-29 0.3.0
2016-04-27 0.2-2
2016-01-08 0.2-1
2015-12-04 0.2-0
2015-10-21 0.1-0
Title: Simple Data Frames
Description: Provides a 'tbl_df' class (the 'tibble') with stricter checking and better formatting than the traditional
data frame.
Author: Kirill Mueller [aut, cre] ,
Hadley Wickham [aut],
Romain Francois [ctb],
Jennifer Bryan [ctb],
RStudio [cph, fnd]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between tibble versions 3.2.0 dated 2023-03-08 and 3.2.1 dated 2023-03-20
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 7 +++++++ R/subassign-backend.R | 4 ++-- inst/doc/invariants.html | 16 ++++++++-------- inst/doc/types.html | 6 +++--- 6 files changed, 28 insertions(+), 21 deletions(-)