Title: Temporal Exponential Random Graph Models by Bootstrapped
Pseudolikelihood
Description: Temporal Exponential Random Graph Models (TERGM) estimated by maximum pseudolikelihood with bootstrapped confidence intervals or Markov Chain Monte Carlo maximum likelihood. Goodness of fit assessment for ERGMs, TERGMs, and SAOMs. Micro-level interpretation of ERGMs and TERGMs. As described in Leifeld, Cranmer and Desmarais (2018), JStatSoft <doi:10.18637/jss.v083.i06>.
Author: Philip Leifeld [aut, cre],
Skyler J. Cranmer [ctb],
Bruce A. Desmarais [ctb]
Maintainer: Philip Leifeld <philip.leifeld@essex.ac.uk>
Diff between btergm versions 1.10.3 dated 2021-06-25 and 1.10.6 dated 2022-04-01
DESCRIPTION | 8 - MD5 | 31 ++--- R/btergm.R | 201 +++++++++++++++++++----------------- R/checkdegeneracy.R | 13 +- R/chemnet.R | 132 ++++++++++++----------- R/knecht.R | 79 +++++++------- R/mtergm.R | 160 ++++++++++++++-------------- R/preprocess.R | 18 ++- R/tergmprepare.R | 238 ++++++++++++++++++++++--------------------- build/partial.rdb |binary man/btergm.Rd | 68 ++++++------ man/chemnet.Rd | 64 +++++------ man/knecht.Rd | 9 + man/mtergm.Rd | 12 +- tests/testthat/test-btergm.R | 57 +++++++--- tests/testthat/test-data.R |only tests/testthat/test-gof.R | 51 +++++++-- 17 files changed, 623 insertions(+), 518 deletions(-)
Title: A Stochastic Block Model for Multilevel Networks
Description: Simulation, inference and clustering of multilevel networks using a
Stochastic Block Model framework as described in Chabert-Liddell, Barbillon,
Donnet and Lazega (2021) <doi:10.1016/j.csda.2021.107179>.
A multilevel network is defined as the junction of two interaction networks,
the upper level or inter-organizational level and the lower level or
inter-individual level. The inter-level represents an affiliation
relationship.
Author: Saint-Clair Chabert-Liddell [aut, cre]
Maintainer: Saint-Clair Chabert-Liddell <academic@chabert-liddell.com>
Diff between MLVSBM versions 0.2.2 dated 2021-06-10 and 0.2.3 dated 2022-04-01
MLVSBM-0.2.2/MLVSBM/man/figures/README-pressure-1.png |only MLVSBM-0.2.3/MLVSBM/DESCRIPTION | 15 MLVSBM-0.2.3/MLVSBM/MD5 | 27 - MLVSBM-0.2.3/MLVSBM/NEWS.md | 3 MLVSBM-0.2.3/MLVSBM/R/FitMLVSBM-class.R | 23 MLVSBM-0.2.3/MLVSBM/R/utility.R | 211 ++++++-- MLVSBM-0.2.3/MLVSBM/README.md | 4 MLVSBM-0.2.3/MLVSBM/build/vignette.rds |binary MLVSBM-0.2.3/MLVSBM/inst/doc/vignette.R | 13 MLVSBM-0.2.3/MLVSBM/inst/doc/vignette.Rmd | 13 MLVSBM-0.2.3/MLVSBM/inst/doc/vignette.html | 449 +++++++++++++----- MLVSBM-0.2.3/MLVSBM/man/FitMLVSBM.Rd | 2 MLVSBM-0.2.3/MLVSBM/man/figures/README-plot-1.png |binary MLVSBM-0.2.3/MLVSBM/man/plot.FitMLVSBM.Rd | 3 MLVSBM-0.2.3/MLVSBM/vignettes/vignette.Rmd | 13 15 files changed, 552 insertions(+), 224 deletions(-)
Title: Fixed Landscape Inference MethOd
Description: Likelihood-free inference method for stochastic models.
Uses a deterministic optimizer on simple simulations of the model
that are performed with a prior drawn randomness by applying the inverse transform method.
Is designed to work on its own and also by using the Julia package Jflimo.
See the git page of the project : <https://metabarcoding.org/flimo>.
Author: Sylvain Moinard
Maintainer: Sylvain Moinard <sylvain.moinard@univ-grenoble-alpes.fr>
Diff between flimo versions 0.1.0 dated 2022-03-30 and 0.1.1 dated 2022-04-01
DESCRIPTION | 7 MD5 | 33 +-- NEWS.md |only R/functions.R | 395 +++++++++++++++++++++++++++++--------------- inst/doc/Examples.R | 2 inst/doc/Examples.Rmd | 22 +- inst/doc/Examples.html | 74 +++++--- man/check_simulator.Rd | 8 man/flimobjective.Rd | 13 + man/flimoptim.Rd | 105 ++++++++--- man/flimoptim_Julia.Rd | 82 ++++++--- man/flimoptim_R.Rd | 48 +++-- man/julia_setup.Rd | 3 man/plot.flimo_result.Rd | 19 +- man/plot_objective.Rd | 25 +- man/print.flimo_result.Rd | 6 man/summary.flimo_result.Rd | 6 vignettes/Examples.Rmd | 22 +- 18 files changed, 584 insertions(+), 286 deletions(-)
Title: Dynamic Trees for Learning and Design
Description: Inference by sequential Monte Carlo for
dynamic tree regression and classification models
with hooks provided for sequential design and optimization,
fully online learning with drift, variable selection, and
sensitivity analysis of inputs. Illustrative
examples from the original dynamic trees paper
(Gramacy, Taddy & Polson (2011); <doi:10.1198/jasa.2011.ap09769>) are facilitated
by demos in the package; see demo(package="dynaTree").
Author: Robert B. Gramacy <rbg@vt.edu>, Matt A. Taddy and Christoforos Anagnostopoulos
Maintainer: Robert B. Gramacy <rbg@vt.edu>
Diff between dynaTree versions 1.2-11 dated 2022-03-31 and 1.2-12 dated 2022-04-01
ChangeLog | 6 ++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- src/linalg.c | 33 ++++++++++++++++++++++++++------- src/linalg.h | 19 ++----------------- src/rhelp.h | 2 +- 6 files changed, 44 insertions(+), 34 deletions(-)
Title: Distances on Directed Graphs
Description: Distances on dual-weighted directed graphs using
priority-queue shortest paths (Padgham (2019) <doi:10.32866/6945>).
Weighted directed graphs have weights from A to B which may differ
from those from B to A. Dual-weighted directed graphs have two sets
of such weights. A canonical example is a street network to be used
for routing in which routes are calculated by weighting distances
according to the type of way and mode of transport, yet lengths of
routes must be calculated from direct distances.
Author: Mark Padgham [aut, cre],
Andreas Petutschnig [aut],
Robin Lovelace [ctb],
Andrew Smith [ctb],
Malcolm Morgan [ctb],
Shane Saunders [cph]
Maintainer: Mark Padgham <mark.padgham@email.com>
Diff between dodgr versions 0.2.12 dated 2021-10-18 and 0.2.13 dated 2022-04-01
DESCRIPTION | 10 MD5 | 79 - NAMESPACE | 2 NEWS.md | 31 R/cache.R |only R/centrality.R | 16 R/dists-categorical.R | 26 R/dodgr-package.R | 1 R/dodgr-streetnet.R | 6 R/flows.R | 20 R/fund-cycles.R | 4 R/graph-contraction.R | 26 R/graph-functions.R | 4 R/save_load_streetnet.R |only R/utils.R | 144 -- R/weight-streetnet-times.R | 6 R/weight-streetnet.R | 4 R/weighting_profiles.R | 2 README.md | 282 ++-- build/vignette.rds |binary inst/doc/dists-categorical.Rmd | 30 inst/doc/dists-categorical.html | 1446 ++++++++++++++++++++++++- inst/doc/dodgr.html | 1807 +++++++++++++++++++++++++++++--- inst/doc/flows.html | 1388 +++++++++++++++++++++++- inst/doc/times.html | 1599 +++++++++++++++++++++++++++- man/clear_dodgr_cache.Rd | 6 man/dodgr.Rd | 1 man/dodgr_cache_off.Rd | 6 man/dodgr_cache_on.Rd | 6 man/dodgr_dists_categorical.Rd | 27 man/dodgr_load_streetnet.Rd |only man/dodgr_save_streetnet.Rd |only src/RcppExports.cpp | 1 src/graph-contract.cpp | 68 + src/graph.cpp | 2 src/graph.h | 14 tests/testthat/test-cache.R | 6 tests/testthat/test-dists-categorical.R | 3 tests/testthat/test-graph-conversion.R | 2 tests/testthat/test-graph-fns.R | 3 tests/testthat/test-save-load.R |only tests/testthat/test-streetnet.R | 10 vignettes/dists-categorical.Rmd | 30 43 files changed, 6462 insertions(+), 656 deletions(-)
Title: Bayesian Preference Learning with the Mallows Rank Model
Description: An implementation of the Bayesian version of the Mallows rank model
(Vitelli et al., Journal of Machine Learning Research, 2018 <https://jmlr.org/papers/v18/15-481.html>;
Crispino et al., Annals of Applied Statistics, 2019 <doi:10.1214/18-AOAS1203>). Both Metropolis-Hastings
and sequential Monte Carlo algorithms for estimating the models are available. Cayley, footrule,
Hamming, Kendall, Spearman, and Ulam distances are supported in the models. The rank data to be
analyzed can be in the form of complete rankings, top-k rankings, partially missing rankings, as well
as consistent and inconsistent pairwise preferences. Several functions for plotting and studying the
posterior distributions of parameters are provided. The package also provides functions for estimating
the partition function (normalizing constant) of the Mallows rank model, both with the importance
sampling algorithm of Vitelli et al. and asymptotic approximation with the IPFP algorithm
(Mukherjee, Annals of Statistics, 2016 <doi:10.1214/15-AOS1389>).
Author: Oystein Sorensen [aut, cre] ,
Valeria Vitelli [aut] ,
Marta Crispino [aut],
Qinghua Liu [aut],
Cristina Mollica [aut],
Luca Tardella [aut],
Anja Stein [aut],
Waldir Leoncio [ctr]
Maintainer: Oystein Sorensen <oystein.sorensen.1985@gmail.com>
Diff between BayesMallows versions 1.1.0 dated 2021-12-03 and 1.1.1 dated 2022-04-01
DESCRIPTION | 6 MD5 | 182 +-- NEWS.md | 4 R/all_topological_sorts.R | 8 R/assess_convergence.R | 64 - R/assign_cluster.R | 12 R/compute_consensus.R | 54 - R/compute_mallows.R | 70 - R/compute_mallows_mixtures.R | 6 R/compute_posterior_intervals.R | 14 R/estimate_partition_function.R | 18 R/expected_dist.R | 22 R/generate_constraints.R | 6 R/generate_initial_ranking.R | 22 R/generate_transitive_closure.R | 9 R/lik_db_mix.R | 14 R/misc.R | 38 R/misc_expected_dist.R | 84 - R/misc_likelihood.R | 33 R/plot.BayesMallows.R | 28 R/plot_elbow.R | 12 R/plot_top_k.R | 12 R/predict_top_k.R | 14 R/print.BayesMallows.R | 6 R/print.BayesMallowsMixtures.R | 6 R/rank_conversion.R | 12 R/rank_distance.R | 6 R/rank_freq_distr.R | 6 R/sample_mallows.R | 18 R/smc_post_processing_functions.R | 37 R/tidy_mcmc.R | 32 build/partial.rdb |binary build/vignette.rds |binary inst/doc/SMC-Mallows.html | 639 ++++++++++++-- inst/examples/expected_dist_example.R | 12 inst/examples/lik_db_mix_example.R | 17 inst/examples/metropolis_hastings_alpha_example.R | 24 inst/examples/rank_distance_example.R | 2 inst/examples/rank_freq_distr_example.R | 4 inst/examples/sample_mallows_example.R | 3 inst/examples/smc_mallows_new_users_complete_example.R | 16 man/expected_dist.Rd | 12 man/lik_db_mix.Rd | 17 man/metropolis_hastings_alpha.Rd | 24 man/rank_distance.Rd | 2 man/rank_freq_distr.Rd | 4 man/sample_mallows.Rd | 3 man/smc_mallows_new_users_complete.Rd | 16 src/RcppExports.cpp | 252 ++--- src/distances.cpp | 5 src/leapandshift.cpp | 5 src/misc.cpp | 76 + src/misc.h | 8 src/rmallows.cpp | 5 src/smc_calculate_backward_probability.cpp | 16 src/smc_calculate_forward_probability.cpp | 21 src/smc_correction_kernel.cpp | 25 src/smc_correction_kernel_pseudo.cpp | 39 src/smc_get_mallows_loglik.cpp | 10 src/smc_get_sample_probabilities.cpp | 22 src/smc_leap_and_shift_probs.cpp | 24 src/smc_mallows_new_item_rank.cpp | 112 -- src/smc_mallows_new_item_rank_alpha_fixed.cpp | 85 - src/smc_mallows_new_users_complete.cpp | 59 - src/smc_mallows_new_users_partial.cpp | 74 - src/smc_mallows_new_users_partial_alpha_fixed.cpp | 82 - src/smc_metropolis_hastings_alpha.cpp | 38 src/smc_metropolis_hastings_aug_ranking.cpp | 36 src/smc_metropolis_hastings_aug_ranking_pseudo.cpp | 49 - src/smc_metropolis_hastings_rho.cpp | 28 tests/testthat.R | 1 tests/testthat/test-classes_compute_consensus_posterior.R | 72 - tests/testthat/test-compute_mallows.R | 28 tests/testthat/test-distance_function.R | 16 tests/testthat/test-estimate_partition_function.R | 2 tests/testthat/test-expected_dist.R | 12 tests/testthat/test-generate_ranking.R | 7 tests/testthat/test-lik_db_mix.R | 18 tests/testthat/test-mcmc_function.R | 1 tests/testthat/test-misc_cpp.R | 4 tests/testthat/test-misc_functions.R | 2 tests/testthat/test-partition_function.R | 44 tests/testthat/test-plot.R | 2 tests/testthat/test-rank_freq_distr.R | 3 tests/testthat/test-sample_mallows.R | 2 tests/testthat/test-smc_individual_functions.R | 302 +++--- tests/testthat/test-smc_mallows_complete_rankings.R | 220 ++-- tests/testthat/test-smc_mallows_new_item_rank.R | 138 +-- tests/testthat/test-smc_mallows_partial_rankings.R | 12 tests/testthat/test-smc_pseudolikelihood.R | 8 tests/testthat/test-smc_uniform.R | 24 tests/testthat/test-transitive_closure.R | 6 92 files changed, 2069 insertions(+), 1576 deletions(-)
Title: Simulate Spatial Bernoulli Networks
Description: Social network analysis is becoming commonplace in many social
science disciplines, but access to useful network data, especially
among marginalized populations, still remains a formidable challenge.
This package mitigates that problem by providing tools to simulate spatial
Bernoulli networks as proposed in Carter T. Butts
(2002, ISBN:978-0-493-72676-2), "Spatial models of large-scale interpersonal
networks." Using this package, network analysts can simulate a spatial point
process or sequence with a given number of nodes inside a geographical
boundary and estimate the probability of a tie formation between all node
pairs. When simulating a network, an analyst can choose between five spatial
interaction functions. The package also enables quick comparison of summary
statistics for simulated networks and provides simple to use plotting
methods for its classes that return plots which can be further refined with
the 'ggplot2' package.
Author: Darren Colby [aut, cre]
Maintainer: Darren Colby <dscolby17@gmail.com>
Diff between spacejamr versions 0.2 dated 2022-02-03 and 0.2.1 dated 2022-04-01
DESCRIPTION | 6 MD5 | 22 - NEWS.md | 4 R/NetSim.R | 508 ++++++++++++++++++++-------------------- R/PointSim.R | 416 ++++++++++++++++---------------- R/compare.R | 156 ++++++------ R/ri.R | 32 +- R/spacejamr.R | 480 ++++++++++++++++++------------------- README.md | 194 +++++++-------- tests/testthat/test-NetSim.R | 34 +- tests/testthat/test-compare.R | 36 +- tests/testthat/test-spacejamr.R | 36 +- 12 files changed, 964 insertions(+), 960 deletions(-)
Title: An Implementation of Matrix Mathematics
Description: An implementation of matrix mathematics wherein operations are performed "by name."
Author: Matthew Heun [aut, cre]
Maintainer: Matthew Heun <matthew.heun@me.com>
Diff between matsbyname versions 0.4.25 dated 2021-10-12 and 0.5.0 dated 2022-04-01
matsbyname-0.4.25/matsbyname/man/make_pattern.Rd |only matsbyname-0.4.25/matsbyname/man/row-col-notation.Rd |only matsbyname-0.5.0/matsbyname/DESCRIPTION | 12 matsbyname-0.5.0/matsbyname/LICENSE | 2 matsbyname-0.5.0/matsbyname/MD5 | 112 + matsbyname-0.5.0/matsbyname/NAMESPACE | 22 matsbyname-0.5.0/matsbyname/NEWS.md | 73 + matsbyname-0.5.0/matsbyname/R/Apply.R | 104 + matsbyname-0.5.0/matsbyname/R/Binary.R | 176 ++- matsbyname-0.5.0/matsbyname/R/CompletingMatrices.R | 3 matsbyname-0.5.0/matsbyname/R/Unary.R | 156 ++ matsbyname-0.5.0/matsbyname/R/Utilities.R | 562 +++++++--- matsbyname-0.5.0/matsbyname/R/agg_helpers.R |only matsbyname-0.5.0/matsbyname/R/matsbyname-package.R |only matsbyname-0.5.0/matsbyname/R/notation.R | 302 ----- matsbyname-0.5.0/matsbyname/R/trim.R | 106 + matsbyname-0.5.0/matsbyname/R/utils-.data.R |only matsbyname-0.5.0/matsbyname/build/vignette.rds |binary matsbyname-0.5.0/matsbyname/inst/CITATION | 8 matsbyname-0.5.0/matsbyname/inst/doc/about-vector-arguments.html | 1 matsbyname-0.5.0/matsbyname/inst/doc/aggregation-vignette.R |only matsbyname-0.5.0/matsbyname/inst/doc/aggregation-vignette.Rmd |only matsbyname-0.5.0/matsbyname/inst/doc/aggregation-vignette.html |only matsbyname-0.5.0/matsbyname/inst/doc/applybyname-vignette.html | 5 matsbyname-0.5.0/matsbyname/inst/doc/matsbyname.Rmd | 7 matsbyname-0.5.0/matsbyname/inst/doc/matsbyname.html | 38 matsbyname-0.5.0/matsbyname/inst/doc/using-summarise-in-matsbyname.R |only matsbyname-0.5.0/matsbyname/inst/doc/using-summarise-in-matsbyname.Rmd |only matsbyname-0.5.0/matsbyname/inst/doc/using-summarise-in-matsbyname.html |only matsbyname-0.5.0/matsbyname/man/aggregate_byname.Rd | 8 matsbyname-0.5.0/matsbyname/man/aggregate_pieces_byname.Rd |only matsbyname-0.5.0/matsbyname/man/aggregate_to_pref_suff_byname.Rd | 14 matsbyname-0.5.0/matsbyname/man/aggregation_map_helpers.Rd |only matsbyname-0.5.0/matsbyname/man/and_byname.Rd | 10 matsbyname-0.5.0/matsbyname/man/data.Rd |only matsbyname-0.5.0/matsbyname/man/equal_byname.Rd | 7 matsbyname-0.5.0/matsbyname/man/geometricmean_byname.Rd | 5 matsbyname-0.5.0/matsbyname/man/getcolnames_byname.Rd | 2 matsbyname-0.5.0/matsbyname/man/hadamardproduct_byname.Rd | 11 matsbyname-0.5.0/matsbyname/man/identical_byname.Rd | 7 matsbyname-0.5.0/matsbyname/man/kvec_from_template_byname.Rd | 18 matsbyname-0.5.0/matsbyname/man/margin_from_types_byname.Rd |only matsbyname-0.5.0/matsbyname/man/matricize_byname.Rd | 2 matsbyname-0.5.0/matsbyname/man/matrixproduct_byname.Rd | 28 matsbyname-0.5.0/matsbyname/man/matsbyname-package.Rd |only matsbyname-0.5.0/matsbyname/man/mean_byname.Rd | 7 matsbyname-0.5.0/matsbyname/man/naryapply_byname.Rd | 13 matsbyname-0.5.0/matsbyname/man/naryapplylogical_byname.Rd | 13 matsbyname-0.5.0/matsbyname/man/organize_args.Rd | 2 matsbyname-0.5.0/matsbyname/man/rename_to_piece_byname.Rd |only matsbyname-0.5.0/matsbyname/man/rename_to_pref_suff_byname.Rd | 12 matsbyname-0.5.0/matsbyname/man/samestructure_byname.Rd | 7 matsbyname-0.5.0/matsbyname/man/select_cols_byname.Rd | 10 matsbyname-0.5.0/matsbyname/man/select_rows_byname.Rd | 10 matsbyname-0.5.0/matsbyname/man/sum_byname.Rd | 28 matsbyname-0.5.0/matsbyname/man/switch_notation_byname.Rd |only matsbyname-0.5.0/matsbyname/man/trim_rows_cols.Rd | 49 matsbyname-0.5.0/matsbyname/man/vec_from_store_byname.Rd |only matsbyname-0.5.0/matsbyname/man/vectorize_byname.Rd | 6 matsbyname-0.5.0/matsbyname/tests/testthat/test-agg_helpers.R |only matsbyname-0.5.0/matsbyname/tests/testthat/test-notation.R | 276 ---- matsbyname-0.5.0/matsbyname/tests/testthat/test-trim.R | 79 + matsbyname-0.5.0/matsbyname/tests/testthat/test_Binary.R | 123 +- matsbyname-0.5.0/matsbyname/tests/testthat/test_Unary.R | 205 ++- matsbyname-0.5.0/matsbyname/tests/testthat/test_Utilities.R | 532 ++++++++- matsbyname-0.5.0/matsbyname/vignettes/aggregation-vignette.Rmd |only matsbyname-0.5.0/matsbyname/vignettes/matsbyname.Rmd | 7 matsbyname-0.5.0/matsbyname/vignettes/using-summarise-in-matsbyname.Rmd |only 68 files changed, 2072 insertions(+), 1108 deletions(-)
Title: Statistics Norway's Miscellaneous Tools
Description: Functions used by other packages from Statistics Norway are gathered. General data manipulation functions, and functions for hierarchical computations are included (Langsrud, 2020) <doi:10.13140/RG.2.2.27313.61283>. The hierarchy specification functions are useful within statistical disclosure control.
Author: Oyvind Langsrud [aut, cre],
Daniel Lupp [aut],
Bjoern-Helge Mevik [cph]
Maintainer: Oyvind Langsrud <oyl@ssb.no>
Diff between SSBtools versions 1.2.2 dated 2021-09-07 and 1.3.0 dated 2022-04-01
DESCRIPTION | 10 MD5 | 139 ++++++------- NAMESPACE | 4 R/AutoHierarchies.R | 73 ++++++ R/Div.R | 84 ------- R/DummyDuplicated.R |only R/Extend0.R | 60 ++++- R/FormulaSums.R | 31 ++ R/GaussIterationFunction.R |only R/GaussSuppression.R | 196 ++++++++++++++++-- R/Hierarchies2ModelMatrix.R | 2 R/HierarchyCompute.R | 27 ++ R/ModelMatrix.R | 55 ++++- R/RowGroups.R | 3 R/forEasySdcTable.R | 21 + man/AddLeadingZeros.Rd | 100 ++++----- man/AddMapsInput.Rd | 34 +-- man/AddNonExistingCode.Rd | 38 +-- man/AutoHierarchies.Rd | 180 +++++++++------- man/AutoSplit.Rd | 114 +++++----- man/CbindIdMatch.Rd | 126 +++++------ man/CharacterDataFrame.Rd | 42 +-- man/CrossCodeFrames.Rd | 50 ++-- man/CrossDataDummyHierarchies.Rd | 62 ++--- man/CrossDataDummyHierarchy.Rd | 60 ++--- man/DataDummyHierarchy.Rd | 69 ++++-- man/DataFrameToMatrix.Rd | 42 +-- man/DimList2Hierarchy.Rd | 54 ++--- man/DimList2Hrc.Rd | 68 +++--- man/DummyDuplicated.Rd | 14 + man/Extend0.Rd | 12 + man/FactorLevCorr.Rd | 98 ++++----- man/FindCommonCells.Rd | 78 +++---- man/FindDimLists.Rd | 97 ++++----- man/FindTableGroup.Rd | 92 ++++---- man/ForceCharacterDataFrame.Rd | 42 +-- man/ForceFactorDataFrame.Rd | 42 +-- man/FormulaSums.Rd | 4 man/GaussIterationFunction.Rd |only man/GaussSuppression.Rd | 15 + man/HierarchicalGroups.Rd | 80 +++---- man/HierarchicalGroups2.Rd | 42 +-- man/HierarchicalGroups3.Rd | 42 +-- man/HierarchicalWildcardGlobbing.Rd | 230 ++++++++++----------- man/Hierarchies2ModelMatrix.Rd | 2 man/Hierarchy2Formula.Rd | 74 +++--- man/HierarchyCompute.Rd | 350 ++++++++++++++++----------------- man/HierarchyCompute2.Rd | 158 +++++++------- man/HierarchyComputeDummy.Rd | 90 ++++---- man/HierarchyFix.Rd | 102 ++++----- man/MakeFreq.Rd | 90 ++++---- man/MakeHierFormula.Rd | 76 +++---- man/Match.Rd | 114 +++++----- man/Matrix2list.Rd | 70 +++--- man/MatrixPaste.Rd | 84 +++---- man/MatrixToDataFrame.Rd | 46 ++-- man/ModelMatrix.Rd | 30 ++ man/Model_Matrix.Rd | 72 +++--- man/Number.Rd | 50 ++-- man/RbindAll.Rd | 74 +++--- man/Reduce0exact.Rd | 248 +++++++++++------------ man/RoundWhole.Rd | 78 +++---- man/RowGroups.Rd | 64 +++--- man/SortRows.Rd | 56 ++--- man/Stack.Rd | 110 +++++----- man/UniqueSeq.Rd | 58 ++--- man/Unstack.Rd | 96 ++++----- man/WildcardGlobbing.Rd | 98 ++++----- man/WildcardGlobbingVector.Rd | 78 +++---- man/crossMerge.Rd | 42 +-- man/matlabColon.Rd | 78 +++---- tests/testthat/test-GaussSuppression.R |only tests/testthat/test-ModelMatrix.R |only 73 files changed, 2758 insertions(+), 2362 deletions(-)
Title: A Future API for Parallel Processing using 'callr'
Description: Implementation of the Future API on top of the 'callr' package. This allows you to process futures, as defined by the 'future' package, in parallel out of the box, on your local (Linux, macOS, Windows, ...) machine. Contrary to backends relying on the 'parallel' package (e.g. 'future::multisession') and socket connections, the 'callr' backend provided here can run more than 125 parallel R processes.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between future.callr versions 0.7.0 dated 2021-11-21 and 0.8.0 dated 2022-04-01
DESCRIPTION | 8 +- MD5 | 18 +++--- NEWS | 10 +++ R/CallrFuture-class.R | 71 ++++++++++++++++++++++--- R/nbrOfFreeWorkers.R | 2 R/waitForWorker.R | 118 ++++++++++++++++++++----------------------- R/zzz.R |only build/vignette.rds |binary inst/CITATION | 17 +++--- inst/WORDLIST | 7 ++ tests/callr,launch-failure.R |only 11 files changed, 161 insertions(+), 90 deletions(-)
Title: Estimate, Plot, and Summarize False Discovery Rates
Description: The user can directly compute and display false discovery rates from inputted p-values or z-scores under a variety of assumptions. p.fdr() computes FDRs, adjusted p-values and decision reject vectors from inputted p-values or z-values. get.pi0() estimates the proportion of data that are truly null. plot.p.fdr() plots the FDRs, adjusted p-values, and the raw p-values points against their rejection threshold lines.
Author: Megan Murray [aut, cre],
Jeffrey Blume [aut]
Maintainer: Megan Murray <megan.c.hollister@vanderbilt.edu>
Diff between FDRestimation versions 1.0.0 dated 2020-11-14 and 1.0.1 dated 2022-04-01
DESCRIPTION | 14 +- MD5 | 12 +- R/p.fdr.R | 30 +++-- README.md | 15 ++ build/partial.rdb |binary inst/REFERENCES.bib | 284 ++++++++++++++++++++++++---------------------------- man/p.fdr.Rd | 4 7 files changed, 179 insertions(+), 180 deletions(-)
Title: Estimating Fixed Effects Individual Slope Models
Description: Provides the function feis() to estimate fixed effects individual
slope (FEIS) models. The FEIS model constitutes a more general version of
the often-used fixed effects (FE) panel model, as implemented in the
package 'plm' by Croissant and Millo (2008) <doi:10.18637/jss.v027.i02>.
In FEIS models, data are not only person demeaned like in conventional
FE models, but detrended by the predicted individual slope of each
person or group. Estimation is performed by applying least squares lm()
to the transformed data. For more details on FEIS models see Bruederl and
Ludwig (2015, ISBN:1446252442); Frees (2001) <doi:10.2307/3316008>;
Polachek and Kim (1994) <doi:10.1016/0304-4076(94)90075-2>;
Ruettenauer and Ludwig (2020) <doi:10.1177/0049124120926211>;
Wooldridge (2010, ISBN:0262294354). To test consistency of conventional FE
and random effects estimators against heterogeneous slopes, the package
also provides the functions feistest() for an artificial regression test
and bsfeistest() for a bootstrapped version of the Hausman test.
Author: Tobias Ruettenauer [aut, cre] ,
Volker Ludwig [aut]
Maintainer: Tobias Ruettenauer <ruettenauer@sowi.uni-kl.de>
Diff between feisr versions 1.2.0 dated 2021-02-25 and 1.3.0 dated 2022-04-01
DESCRIPTION | 8 MD5 | 23 - NEWS.md | 14 R/aod.R |only R/feistest.R | 44 +- R/utility_functions.R | 20 - README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/feisr-vignette.html | 819 ++++++++++++++++--------------------------- man/bsfeistest.Rd | 10 man/detrend.Rd | 4 man/feistest.Rd | 10 13 files changed, 397 insertions(+), 557 deletions(-)
Title: Data from Access to Information Law
Description: Downloads the public data available from the Brazilian Access to Information Law and and performs a search on information requests and appeals made since 2015.
Author: Igor Laltuf [aut, cre]
Maintainer: Igor Laltuf <igorlaltuf@gmail.com>
Diff between dail versions 1.1 dated 2022-01-17 and 1.3 dated 2022-04-01
dail-1.1/dail/R/appeals_all.R |only dail-1.1/dail/R/requests_all.R |only dail-1.1/dail/man/appeals_all.Rd |only dail-1.1/dail/man/requests_all.Rd |only dail-1.3/dail/DESCRIPTION | 8 ++-- dail-1.3/dail/MD5 | 19 ++++------- dail-1.3/dail/NAMESPACE | 2 - dail-1.3/dail/R/appeals.R | 29 +++++++++++------ dail-1.3/dail/R/requests.R | 29 ++++++++++++----- dail-1.3/dail/README.md | 64 ++++++++++++++++++++++++++------------ dail-1.3/dail/man/appeals.Rd | 4 +- dail-1.3/dail/man/figures |only dail-1.3/dail/man/requests.Rd | 4 +- 13 files changed, 103 insertions(+), 56 deletions(-)
Title: Bioequivalence Study Data Analysis
Description: Analyze bioequivalence study data with industrial strength. Sample size could be determined for various crossover designs, such as 2x2 design, 2x4 design, 4x4 design, Balaam design, Two-sequence dual design, and William design.
Reference: Chow SC, Liu JP. Design and Analysis of Bioavailability and Bioequivalence Studies. 3rd ed. (2009, ISBN:978-1-58488-668-6).
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between BE versions 0.1.5 dated 2021-12-15 and 0.2.0 dated 2022-04-01
DESCRIPTION | 6 +++--- MD5 | 12 ++++++++---- R/scaledBound.R |only R/ssmse.R | 5 ++++- R/ssscv.R |only inst/NEWS.Rd | 9 ++++++++- inst/doc/BE-manual.pdf |binary man/scaledBound.Rd |only man/ssscv.Rd |only 9 files changed, 23 insertions(+), 9 deletions(-)
Title: Data Exchange Between R and 'LabKey' Server
Description: The 'LabKey' client library for R makes it easy for R users to
load live data from a 'LabKey' Server, <https://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a 'LabKey' Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 2.8.3 dated 2022-02-25 and 2.8.4 dated 2022-04-01
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 3 +++ R/labkey.provenance.R | 12 +++++++++++- man/Rlabkey-package.Rd | 4 ++-- man/labkey.provenance.createProvenanceParams.Rd | 19 ++++++++++++++++++- 6 files changed, 43 insertions(+), 13 deletions(-)
Title: Poisson-Tweedie Generalized Linear Mixed Model
Description: Fits the Poisson-Tweedie generalized linear mixed model
described in Signorelli et al. (2021, <doi:10.1177/1471082X20936017>).
Likelihood approximation based on adaptive Gauss Hermite quadrature
rule.
Author: Mirko Signorelli [aut, cre, cph]
,
Pietro Spitali [ctb],
Roula Tsonaka [ctb]
Maintainer: Mirko Signorelli <msignorelli.rpackages@gmail.com>
Diff between ptmixed versions 1.1.1 dated 2021-12-01 and 1.1.2 dated 2022-04-01
DESCRIPTION | 43 MD5 | 14 R/aod_wald.R |only R/wald-test.R | 149 +- build/vignette.rds |binary data/df1.RData |binary inst/NEWS.md | 490 ++++----- inst/doc/Overview_functionalities_ptmixed.R |only inst/doc/Overview_functionalities_ptmixed.html | 1338 +++++++++++++------------ 9 files changed, 1061 insertions(+), 973 deletions(-)
Title: Nominal Data Mining Analysis
Description: Functions for nominal data mining based on bipartite graphs, which build a pipeline for analysis and missing values imputation. Methods are mainly from the paper: Jafari, Mohieddin, et al. (2021) <doi:10.1101/2021.03.18.436040>, some new ones are also included.
Author: Mohieddin Jafari [aut, cre],
Cheng Chen [aut]
Maintainer: Mohieddin Jafari <mohieddin.jafari@helsinki.fi>
Diff between NIMAA versions 0.1.0 dated 2021-09-13 and 0.2.0 dated 2022-04-01
NIMAA-0.1.0/NIMAA/R/impute-missing-values.R |only NIMAA-0.1.0/NIMAA/R/validate-imputation.R |only NIMAA-0.1.0/NIMAA/man/imputeMissingValue.Rd |only NIMAA-0.1.0/NIMAA/man/validateImputation.Rd |only NIMAA-0.1.0/NIMAA/tests/testthat/test-impute-missing-values.R |only NIMAA-0.2.0/NIMAA/DESCRIPTION | 18 NIMAA-0.2.0/NIMAA/MD5 | 101 - NIMAA-0.2.0/NIMAA/NAMESPACE | 4 NIMAA-0.2.0/NIMAA/NEWS.md |only NIMAA-0.2.0/NIMAA/R/NIMAA-package.R | 2 NIMAA-0.2.0/NIMAA/R/analyse-network.R | 30 NIMAA-0.2.0/NIMAA/R/data.R | 34 NIMAA-0.2.0/NIMAA/R/el2IncMatrix.R | 47 NIMAA-0.2.0/NIMAA/R/extract-nonmissing-submatrix.R | 63 NIMAA-0.2.0/NIMAA/R/find-cluster.R | 74 NIMAA-0.2.0/NIMAA/R/plot-cluster.R | 25 NIMAA-0.2.0/NIMAA/R/plot-input.R | 46 NIMAA-0.2.0/NIMAA/R/plot-original-bipartite-interactive.R | 27 NIMAA-0.2.0/NIMAA/R/plot-original-bipartite.R | 51 NIMAA-0.2.0/NIMAA/R/predict-edge.R |only NIMAA-0.2.0/NIMAA/R/score-cluster.R | 40 NIMAA-0.2.0/NIMAA/R/validate-cluster.R | 53 NIMAA-0.2.0/NIMAA/R/validate-edge-prediction.R |only NIMAA-0.2.0/NIMAA/R/visual-cluster-in-bipartite.R | 59 NIMAA-0.2.0/NIMAA/README.md | 193 +- NIMAA-0.2.0/NIMAA/build/vignette.rds |binary NIMAA-0.2.0/NIMAA/data/herbIngredient.rda |binary NIMAA-0.2.0/NIMAA/inst/doc/NIMAA-vignette.R | 168 - NIMAA-0.2.0/NIMAA/inst/doc/NIMAA-vignette.Rmd | 339 +-- NIMAA-0.2.0/NIMAA/inst/doc/NIMAA-vignette.html | 931 +++++++--- NIMAA-0.2.0/NIMAA/man/NIMAA.Rd | 2 NIMAA-0.2.0/NIMAA/man/analyseNetwork.Rd | 28 NIMAA-0.2.0/NIMAA/man/beatAML.Rd | 5 NIMAA-0.2.0/NIMAA/man/drugComb.Rd | 9 NIMAA-0.2.0/NIMAA/man/el2IncMatrix.Rd | 48 NIMAA-0.2.0/NIMAA/man/extractSubMatrix.Rd | 69 NIMAA-0.2.0/NIMAA/man/figures/README-findcluster-1.png |only NIMAA-0.2.0/NIMAA/man/figures/README-plotBipartite-1.png |binary NIMAA-0.2.0/NIMAA/man/figures/README-unnamed-chunk-6-1.png |only NIMAA-0.2.0/NIMAA/man/findCluster.Rd | 64 NIMAA-0.2.0/NIMAA/man/herbIngredient.Rd | 10 NIMAA-0.2.0/NIMAA/man/plotBipartite.Rd | 49 NIMAA-0.2.0/NIMAA/man/plotBipartiteInteractive.Rd | 23 NIMAA-0.2.0/NIMAA/man/plotCluster.Rd | 24 NIMAA-0.2.0/NIMAA/man/plotInput.Rd | 52 NIMAA-0.2.0/NIMAA/man/predictEdge.Rd |only NIMAA-0.2.0/NIMAA/man/robertson.Rd | 10 NIMAA-0.2.0/NIMAA/man/scoreCluster.Rd | 38 NIMAA-0.2.0/NIMAA/man/validateCluster.Rd | 50 NIMAA-0.2.0/NIMAA/man/validateEdgePrediction.Rd |only NIMAA-0.2.0/NIMAA/man/visualClusterInBipartite.Rd | 56 NIMAA-0.2.0/NIMAA/tests/testthat/test-analyse-network.R | 9 NIMAA-0.2.0/NIMAA/tests/testthat/test-el2IncMatrix.R | 21 NIMAA-0.2.0/NIMAA/tests/testthat/test-extract-nonmissing-submatrix.R | 14 NIMAA-0.2.0/NIMAA/tests/testthat/test-find-cluster.R | 19 NIMAA-0.2.0/NIMAA/tests/testthat/test-predict-edge.R |only NIMAA-0.2.0/NIMAA/vignettes/NIMAA-vignette.Rmd | 339 +-- NIMAA-0.2.0/NIMAA/vignettes/interactiveplot.png |only NIMAA-0.2.0/NIMAA/vignettes/refs.bib |only 59 files changed, 1768 insertions(+), 1476 deletions(-)
Title: Analyze Cricket Performances Based on Data from Cricsheet
Description: Analyzing performances of cricketers and cricket teams
based on 'yaml' match data from Cricsheet <https://cricsheet.org/>.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between yorkr versions 0.0.31 dated 2022-02-05 and 0.0.32 dated 2022-04-01
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/getIPLBattingDetails.R | 2 +- R/getIPLBowlingDetails.R | 2 +- R/saveAllMatchesAllOppositionIPLT20.R | 2 +- R/saveAllMatchesBetween2IPLTeams.R | 2 +- 6 files changed, 13 insertions(+), 13 deletions(-)
Title: An Algorithm for Morphometric Characters Selection and
Statistical Validation in Morphological Taxonomy
Description: An algorithm which identifies the morphometric features that significantly discriminate two taxa and validates the morphological distinctness between them via a Monte-Carlo test, polar coordinates and overlap of the area under the density curve.
Permanent link
Title: C++ Classes to Embed R in C++ (and C) Applications
Description: C++ classes to embed R in C++ (and C) applications
A C++ class providing the R interpreter is offered by this package
making it easier to have "R inside" your C++ application. As R itself
is embedded into your application, a shared library build of R is
required. This works on Linux, OS X and even on Windows provided you
use the same tools used to build R itself. Numerous examples are
provided in the nine subdirectories of the examples/ directory of
the installed package: standard, 'mpi' (for parallel computing), 'qt'
(showing how to embed 'RInside' inside a Qt GUI application), 'wt'
(showing how to build a "web-application" using the Wt toolkit),
'armadillo' (for 'RInside' use with 'RcppArmadillo'), 'eigen' (for
'RInside' use with 'RcppEigen'), and 'c_interface' for a basic C
interface and 'Ruby' illustration. The examples use 'GNUmakefile(s)'
with GNU extensions, so a GNU make is required (and will use the
'GNUmakefile' automatically). 'Doxygen'-generated documentation of
the C++ classes is available at the 'RInside' website as well.
Author: Dirk Eddelbuettel, Romain Francois, and Lance Bachmeier
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RInside versions 0.2.16 dated 2020-03-12 and 0.2.17 dated 2022-04-01
ChangeLog | 38 ++++++++++++++++++++++++++ DESCRIPTION | 11 ++++--- MD5 | 12 ++++---- README.md | 10 +++--- inst/NEWS.Rd | 11 +++++++ inst/examples/standard/GNUmakefile | 53 ++++++++++++++++++------------------- src/RInside.cpp | 8 ++++- 7 files changed, 98 insertions(+), 45 deletions(-)
Title: Multivariate Projection Methods
Description: Exploratory graphical analysis of multivariate data,
specifically gene expression data with different projection
methods: principal component analysis, correspondence analysis,
spectral map analysis.
Author: Luc Wouters [aut],
Tobias Verbeke [ctb],
Laure Cougnaud [cre]
Maintainer: Laure Cougnaud <laure.cougnaud@openanalytics.eu>
Diff between mpm versions 1.0-22 dated 2011-11-25 and 1.0-23 dated 2022-04-01
DESCRIPTION | 27 ++++-- MD5 | 44 +++++----- NAMESPACE | 27 +++++- R/Famin81A.R | 13 +-- R/Golub.R | 1 R/export.summary.mpm.R | 7 - R/mpm.R | 3 R/plot.mpm.R | 21 +++- R/print.mpm.R | 2 R/print.summary.mpm.R | 2 R/summary.mpm.R | 2 R/zzz.R | 1 inst/NEWS | 5 + man/Famin81A.Rd | 30 +++++-- man/Golub.Rd | 123 +++++++++++++++++++++++++--- man/export.Rd | 21 +++- man/export.summary.mpm.Rd | 36 +++++--- man/mpm.Rd | 196 +++++++++++++++++++++++++++------------------- man/plot.mpm.Rd | 146 +++++++++++++++++++++++----------- man/print.mpm.Rd | 25 ++++- man/print.summary.mpm.Rd | 26 ++++-- man/summary.mpm.Rd | 107 ++++++++++++++----------- tests/tests.R | 3 23 files changed, 588 insertions(+), 280 deletions(-)
Title: Access and Analyze eBird Status and Trends Data
Description: Tools to download, map, plot and analyze eBird Status and
Trends data (<https://ebird.org/science/status-and-trends>). eBird
(<https://ebird.org/home>) is a global database of bird observations
collected by citizen scientists. eBird Status and Trends uses these
data to model continental bird abundances, range boundaries, habitat
associations, and trends.
Author: Matthew Strimas-Mackey [aut, cre]
,
Shawn Ligocki [aut],
Tom Auer [aut] ,
Daniel Fink [aut] ,
Cornell Lab of Ornithology [cph]
Maintainer: Matthew Strimas-Mackey <mes335@cornell.edu>
Diff between ebirdst versions 0.3.4 dated 2022-03-16 and 0.3.5 dated 2022-04-01
DESCRIPTION | 6 - MD5 | 20 ++--- NEWS.md | 4 + R/ebirdst-loading.R | 2 inst/doc/ebirdst-advanced-mapping.R | 93 ----------------------- inst/doc/ebirdst-advanced-mapping.Rmd | 131 --------------------------------- inst/doc/ebirdst-advanced-mapping.html | 109 --------------------------- inst/doc/ebirdst-intro-mapping.html | 4 - inst/doc/ebirdst-non-raster.html | 4 - inst/doc/ebirdst.html | 4 - vignettes/ebirdst-advanced-mapping.Rmd | 131 --------------------------------- 11 files changed, 26 insertions(+), 482 deletions(-)
Title: Calibration Functions for Analytical Chemistry
Description: Simple functions for plotting linear
calibration functions and estimating standard errors for measurements
according to the Handbook of Chemometrics and Qualimetrics: Part A
by Massart et al. (1997) There are also functions estimating the limit
of detection (LOD) and limit of quantification (LOQ).
The functions work on model objects from - optionally weighted - linear
regression (lm) or robust linear regression ('rlm' from the 'MASS' package).
Author: Johannes Ranke [aut, cre, cph]
Maintainer: Johannes Ranke <johannes.ranke@jrwb.de>
Diff between chemCal versions 0.2.2 dated 2021-04-17 and 0.2.3 dated 2022-04-01
chemCal-0.2.2/chemCal/man/calplot.lm.Rd |only chemCal-0.2.3/chemCal/DESCRIPTION | 14 - chemCal-0.2.3/chemCal/MD5 | 50 ++-- chemCal-0.2.3/chemCal/NAMESPACE | 34 +- chemCal-0.2.3/chemCal/NEWS.md | 3 chemCal-0.2.3/chemCal/R/calplot.R | 44 +++ chemCal-0.2.3/chemCal/R/chemCal-package.R |only chemCal-0.2.3/chemCal/R/inverse.predict.lm.R | 77 ++++++ chemCal-0.2.3/chemCal/R/lod.R | 61 +++++ chemCal-0.2.3/chemCal/R/loq.R | 50 ++++ chemCal-0.2.3/chemCal/README.md | 141 +++++++++++- chemCal-0.2.3/chemCal/build/vignette.rds |binary chemCal-0.2.3/chemCal/data/din32645.rda |binary chemCal-0.2.3/chemCal/inst/doc/chemCal.Rmd | 2 chemCal-0.2.3/chemCal/inst/doc/chemCal.html | 45 ++- chemCal-0.2.3/chemCal/man/calplot.Rd |only chemCal-0.2.3/chemCal/man/din32645.Rd | 31 +- chemCal-0.2.3/chemCal/man/figures |only chemCal-0.2.3/chemCal/man/inverse.predict.Rd | 108 +++++---- chemCal-0.2.3/chemCal/man/lod.Rd | 123 +++++----- chemCal-0.2.3/chemCal/man/loq.Rd | 110 ++++----- chemCal-0.2.3/chemCal/man/massart97ex1.Rd | 19 - chemCal-0.2.3/chemCal/man/massart97ex3.Rd | 27 +- chemCal-0.2.3/chemCal/man/rl95_cadmium.Rd | 21 + chemCal-0.2.3/chemCal/man/rl95_toluene.Rd | 22 + chemCal-0.2.3/chemCal/man/utstats14.Rd | 23 + chemCal-0.2.3/chemCal/tests/testthat/test_compare_investr.R | 10 chemCal-0.2.3/chemCal/vignettes/chemCal.Rmd | 2 28 files changed, 717 insertions(+), 300 deletions(-)
Title: Extension to 'spatstat' for Local Composite Likelihood
Description: Extension to the 'spatstat' package, enabling the user
to fit point process models to point pattern data
by local composite likelihood ('geographically weighted
regression').
Author: Adrian Baddeley [aut, cre]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.local versions 4.1-4 dated 2022-02-23 and 4.1-5 dated 2022-04-01
DESCRIPTION | 10 +- MD5 | 8 +- NEWS | 7 ++ R/RCS/locppm.R,v | 190 ++++++++++++++++++++++++++++++++++++++++++++++--------- R/locppm.R | 45 ++++++++----- 5 files changed, 208 insertions(+), 52 deletions(-)
More information about spatstat.local at CRAN
Permanent link
Title: Projection Predictive Feature Selection
Description: Performs projection predictive feature selection for generalized linear
models and generalized linear and additive multilevel models (see Piironen,
Paasiniemi and Vehtari, 2020, <doi:10.1214/20-EJS1711>; Catalina, Bürkner
and Vehtari, 2020, <arXiv:2010.06994>). The package is compatible with the
'rstanarm' and 'brms' packages, but other reference models can also be used.
See the documentation as well as the package vignette for more information
and examples.
Author: Juho Piironen [aut],
Markus Paasiniemi [aut],
Alejandro Catalina [aut],
Aki Vehtari [aut],
Frank Weber [cre, aut],
Jonah Gabry [ctb],
Marco Colombo [ctb],
Paul-Christian Buerkner [ctb],
Hamada S. Badr [ctb]
Maintainer: Frank Weber <fweber144@protonmail.com>
Diff between projpred versions 2.0.2 dated 2020-10-28 and 2.1.0 dated 2022-04-01
projpred-2.0.2/projpred/inst/doc/quickstart.R |only projpred-2.0.2/projpred/inst/doc/quickstart.Rmd |only projpred-2.0.2/projpred/inst/doc/quickstart.html |only projpred-2.0.2/projpred/inst/doc/quickstart_glmm.R |only projpred-2.0.2/projpred/inst/doc/quickstart_glmm.Rmd |only projpred-2.0.2/projpred/inst/doc/quickstart_glmm.html |only projpred-2.0.2/projpred/man/get-refmodel.Rd |only projpred-2.0.2/projpred/man/helper_formula.Rd |only projpred-2.0.2/projpred/man/print-vsel.Rd |only projpred-2.0.2/projpred/man/proj-pred.Rd |only projpred-2.0.2/projpred/man/projpred.Rd |only projpred-2.0.2/projpred/man/suggest_size.vsel.Rd |only projpred-2.0.2/projpred/tests/testthat/helpers/SW.R |only projpred-2.0.2/projpred/tests/testthat/test_syntax.R |only projpred-2.0.2/projpred/vignettes/children/SETTINGS-gg.txt |only projpred-2.0.2/projpred/vignettes/children/SETTINGS-rstan.txt |only projpred-2.0.2/projpred/vignettes/data_pois.csv |only projpred-2.0.2/projpred/vignettes/quickstart.Rmd |only projpred-2.0.2/projpred/vignettes/quickstart_glmm.Rmd |only projpred-2.1.0/projpred/DESCRIPTION | 58 projpred-2.1.0/projpred/LICENSE |only projpred-2.1.0/projpred/MD5 | 153 projpred-2.1.0/projpred/NAMESPACE | 99 projpred-2.1.0/projpred/NEWS.md | 257 - 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Title: Flexible and Reproducible Label Designs
Description: An open-source R package to deploys flexible and reproducible labels using layers.
The 'huito' package is part of the 'inkaverse' project for developing different procedures and
tools used in plant science and experimental designs.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] ,
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between huito versions 0.1.2 dated 2022-01-20 and 0.1.3 dated 2022-04-01
DESCRIPTION | 11 MD5 | 69 - NEWS.md | 9 R/fieldbook.R |only R/huito_fonts.R | 8 R/include_barcode.R | 29 R/include_image.R | 23 R/include_text.R | 23 R/label_layout.R | 19 R/label_print.R | 82 - R/utils.R | 1 build/vignette.rds |binary data |only inst/doc/germinar.R | 13 inst/doc/germinar.Rmd | 13 inst/doc/germinar.html | 277 +++- inst/doc/huito.Rmd | 2 inst/doc/huito.html | 186 ++ inst/doc/labels.R | 46 inst/doc/labels.Rmd | 56 inst/doc/labels.html | 3139 +++++++++++++++++++++++++++++++++++++++++++++- inst/doc/stickers.R | 16 inst/doc/stickers.Rmd | 16 inst/doc/stickers.html | 276 +++- inst/fonts |only man/fieldbook.Rd |only man/huito_fonts.Rd | 2 man/include_barcode.Rd | 30 man/include_image.Rd | 24 man/include_text.Rd | 23 man/label_print.Rd | 56 vignettes/germinar.Rmd | 13 vignettes/huito.Rmd | 2 vignettes/huito.zip |binary vignettes/huito/img_1.png |binary vignettes/labels.Rmd | 56 vignettes/stickers.Rmd | 16 37 files changed, 4022 insertions(+), 514 deletions(-)
Title: Generalised Joint Regression Modelling
Description: Routines for fitting various joint (and univariate) regression models, with several types of covariate effects, in the presence of equations' errors association, endogeneity, non-random sample selection or partial observability.
Author: Giampiero Marra <giampiero.marra@ucl.ac.uk> and Rosalba Radice <rosalba.radice@city.ac.uk>
Maintainer: Giampiero Marra <giampiero.marra@ucl.ac.uk>
Diff between GJRM versions 0.2-5.1 dated 2021-10-12 and 0.2-6 dated 2022-04-01
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Title: An R Package to Extend 'ACER ConQuest'
Description: Extends 'ACER ConQuest' through a family of functions
designed to improve graphical outputs and help with advanced analysis
(e.g., differential item functioning). Allows R users to call
'ACER ConQuest' from within R and read 'ACER ConQuest' System Files
(generated by the command 'put'). Requires 'ACER ConQuest' version
5.19.5 or later. A demonstration version can be downloaded from
<https://shop.acer.org/acer-conquest-5.html>.
Author: Dan Cloney [aut, cre] ,
Ray Adams [aut]
Maintainer: Dan Cloney <dan.cloney@acer.org>
Diff between conquestr versions 0.8.5 dated 2020-08-10 and 0.9.96 dated 2022-04-01
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Title: Bayesian Global Vector Autoregressions
Description: Estimation of Bayesian Global Vector Autoregressions (BGVAR) with different prior setups and the possibility to introduce stochastic volatility. Built-in priors include the Minnesota, the stochastic search variable selection and Normal-Gamma (NG) prior. For a reference see also Crespo Cuaresma, J., Feldkircher, M. and F. Huber (2016) "Forecasting with Global Vector Autoregressive Models: a Bayesian Approach", Journal of Applied Econometrics, Vol. 31(7), pp. 1371-1391 <doi:10.1002/jae.2504>. Post-processing functions allow for doing predictions, structurally identify the model with short-run or sign-restrictions and compute impulse response functions, historical decompositions and forecast error variance decompositions. Plotting functions are also available.
Author: Maximilian Boeck [aut, cre] ,
Martin Feldkircher [aut] ,
Florian Huber [aut] ,
Darjus Hosszejni [ctb]
Maintainer: Maximilian Boeck <maximilian.boeck@da-vienna.ac.at>
Diff between BGVAR versions 2.4.3 dated 2021-11-06 and 2.4.4 dated 2022-04-01
DESCRIPTION | 12 MD5 | 52 +- NAMESPACE | 1 NEWS | 14 R/BGVAR.R | 122 +++-- R/RcppExports.R | 8 R/bgvar-package.R | 6 R/fevd.R | 32 - R/hd.R | 35 - R/helpers.R | 22 R/irf.R | 85 ++- R/predict.R | 15 R/utils.R | 651 +++++++++++++++++++-------- data/monthlyData.rda |binary data/pesaranData.rda |binary inst/doc/examples.html | 929 +++++++++++++++++++++------------------ inst/include/BGVAR_RcppExports.h | 6 man/bgvar.Rd | 17 man/irf.Rd | 3 man/monthlyData.Rd | 2 man/pesaranData.Rd | 7 src/BVAR_linear.cpp | 479 ++++++++++++-------- src/RcppExports.cpp | 23 src/gvar_stacking.cpp | 8 src/helper.cpp | 10 src/helper.h | 2 src/irf.cpp | 12 27 files changed, 1573 insertions(+), 980 deletions(-)
Title: Label Creation for Tracking and Collecting Data from Biological
Samples
Description: Tools to generate unique identifier codes and
printable barcoded labels for the management of biological samples.
The creation of unique ID codes and printable PDF files can be
initiated by standard commands, user prompts, or through a GUI addin
for R Studio. Biologically informative codes can be included for
hierarchically structured sampling designs.
Author: Yihan Wu [aut] ,
Robert Colautti [aut, cre] ,
Emily Bao [ctb],
LluÃs Revilla Sancho [rev] ,
Rayna Harris [rev]
Maintainer: Robert Colautti <robert.colautti@queensu.ca>
Diff between baRcodeR versions 0.1.5 dated 2020-03-07 and 0.1.7 dated 2022-04-01
DESCRIPTION | 25 MD5 | 64 NAMESPACE | 1 NEWS.md | 120 - R/hidden_createPDF.R | 1195 ++++++---- R/uniqIDHierarchy.R | 256 +- R/uniqIDMaker.R | 226 - R/uniqID_maker_addin.R | 962 ++++---- R/zzz.R | 110 README.md | 53 build/vignette.rds |binary inst/doc/Using-baRcodeR.Rmd | 747 +++--- inst/doc/Using-baRcodeR.html | 295 -- inst/doc/use-addin.Rmd | 184 - inst/doc/use-addin.html | 257 -- man/create_PDF.Rd | 5 man/custom_create_PDF.Rd | 46 tests/testthat/apps/make_labels/tests/hier_labels-expected/001.png |binary tests/testthat/apps/make_labels/tests/hier_labels-expected/002.json | 106 tests/testthat/apps/make_labels/tests/hier_labels-expected/002.png |binary tests/testthat/apps/make_labels/tests/hier_labels.R | 36 tests/testthat/apps/make_labels/tests/labels-expected/001.json | 106 tests/testthat/apps/make_labels/tests/labels-expected/001.png |binary tests/testthat/apps/make_labels/tests/labels.R | 22 tests/testthat/apps/make_labels/tests/test_bar-expected/001.json | 2 tests/testthat/apps/make_labels/tests/test_bar.R | 28 tests/testthat/test-interactive.R | 244 +- tests/testthat/test-label_generation.R | 54 tests/testthat/test-pdf_creation.R | 68 tests/testthat/test-test-addin.R | 18 tests/testthat/test_warnings.R | 152 - vignettes/Using-baRcodeR.Rmd | 747 +++--- vignettes/use-addin.Rmd | 184 - 33 files changed, 3213 insertions(+), 3100 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt'. Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided (Hothorn, 2019, <arxiv:1910.09219>).
Multivariate conditional transformation models (<arxiv:1906.03151>) can be fitted as well.
Author: Torsten Hothorn [aut, cre] ,
Luisa Barbanti [aut] ,
Brian Ripley [ctb],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 0.6-4 dated 2022-01-14 and 0.7-0 dated 2022-04-01
tram-0.6-4/tram/R/helpers.R |only tram-0.6-4/tram/cleanup |only tram-0.7-0/tram/DESCRIPTION | 19 - tram-0.7-0/tram/MD5 | 41 +-- tram-0.7-0/tram/NAMESPACE | 31 ++ tram-0.7-0/tram/R/methods.R | 367 +++++++++++++++++++++++++---- tram-0.7-0/tram/R/models.R | 82 ++++-- tram-0.7-0/tram/R/mtram.R | 225 ++++++++++++++--- tram-0.7-0/tram/R/plot.R | 27 ++ tram-0.7-0/tram/R/tram.R | 58 ++++ tram-0.7-0/tram/build/partial.rdb |binary tram-0.7-0/tram/build/vignette.rds |binary tram-0.7-0/tram/demo/00Index | 2 tram-0.7-0/tram/inst/NEWS.Rd | 12 tram-0.7-0/tram/inst/doc/mtram.pdf |binary tram-0.7-0/tram/inst/doc/tram.pdf |binary tram-0.7-0/tram/man/Colr.Rd | 6 tram-0.7-0/tram/man/mtram.Rd | 10 tram-0.7-0/tram/man/tram-methods.Rd | 159 ++++++++++++ tram-0.7-0/tram/man/tram.Rd | 10 tram-0.7-0/tram/tests/PI_OVL-Ex.R |only tram-0.7-0/tram/tests/Survreg-Ex.Rout.save | 26 +- tram-0.7-0/tram/tests/stram-Ex.R |only tram-0.7-0/tram/tests/stram-Ex.Rout.save |only 24 files changed, 909 insertions(+), 166 deletions(-)
Title: Bayesian Model Selection and Averaging for Non-Local and Local
Priors
Description: Bayesian model selection and averaging for regression and mixtures for non-local and selected local priors.
Author: David Rossell, John D. Cook, Donatello Telesca, P. Roebuck, Oriol Abril, Miquel Torrens
Maintainer: David Rossell <rosselldavid@gmail.com>
Diff between mombf versions 3.0.7 dated 2021-11-03 and 3.1.3 dated 2022-04-01
ChangeLog | 15 DESCRIPTION | 23 - MD5 | 45 +- NAMESPACE | 5 R/AllClasses.R | 5 R/cil.R |only R/infocriteria.R | 6 R/initParameters.R |only R/modelSelection.R | 54 ++- R/nlpMarginal.R | 9 build/vignette.rds |binary data/hald.rda |binary inst/doc/mombf.pdf |binary man/cil.Rd |only man/modelSelection.Rd | 9 man/nlpMarginals.Rd | 5 man/postProb.Rd | 1 src/RcppExports.cpp | 16 - src/cstat.cpp | 44 +- src/glm.cpp | 26 + src/modelSel.cpp | 69 +++- src/modelSel.h | 12 src/modselFunction.cpp | 739 +++++++++++++++++++++++++++---------------------- src/nlpMarg.cpp | 10 src/nlpMarg.h | 2 25 files changed, 662 insertions(+), 433 deletions(-)
Title: Miscellaneous Functions for 'ggplot2'
Description: Useful functions to edit 'ggplot' object (e.g., setting fonts for theme and layers, adding rounded rectangle as background for each of the legends).
Author: Guangchuang Yu [aut, cre, cph]
,
Shuangbin Xu [aut]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggfun versions 0.0.5 dated 2022-01-20 and 0.0.6 dated 2022-04-01
DESCRIPTION | 6 MD5 | 64 +++--- NAMESPACE | 94 +++++--- NEWS.md | 61 +++-- R/add-facet.R | 78 +++---- R/axis.R |only R/facet_set.R | 38 +-- R/ggelement.R | 122 +++++------ R/gglegend.R | 96 ++++----- R/keybox.R | 72 +++--- R/method-ggplot-add.R | 132 ++++++------ R/method-identify.R |only R/reexport.R | 6 R/set_font.R | 84 +++---- R/theme.R | 68 +++--- R/utilities.R | 194 +++++++++--------- build/vignette.rds |binary inst/doc/ggfun.R | 110 +++++----- inst/doc/ggfun.Rmd | 236 +++++++++++----------- inst/doc/ggfun.html | 494 +++++++++++++++++++++++------------------------ man/element_roundrect.Rd | 104 ++++----- man/facet_set.Rd | 42 +-- man/get_aes_var.Rd | 44 ++-- man/ggbreak2ggplot.Rd | 40 +-- man/gglegend.Rd | 74 +++---- man/ggrange.Rd |only man/identify.Rd |only man/is-ggbreak.Rd | 40 +-- man/is.ggtree.Rd | 40 +-- man/keybox.Rd | 58 ++--- man/reexports.Rd | 35 +-- man/set_font.Rd | 70 +++--- man/theme_nothing.Rd | 44 ++-- man/theme_transparent.Rd | 40 +-- vignettes/ggfun.Rmd | 236 +++++++++++----------- 35 files changed, 1426 insertions(+), 1396 deletions(-)
Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Description: Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images.
Contains over 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference.
Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks.
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods.
A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above.
Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.
Author: Adrian Baddeley [aut, cre],
Rolf Turner [aut],
Ege Rubak [aut]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat versions 2.3-3 dated 2022-02-20 and 2.3-4 dated 2022-04-01
DESCRIPTION | 11 ++--- MD5 | 42 +++++++++---------- NEWS | 16 +++++++ R/news.R | 3 - build/vignette.rds |binary demo/spatstat.R | 1 inst/doc/Nickname.txt | 2 inst/doc/bugfixes.R | 48 ++++++++++++++++++---- inst/doc/bugfixes.Rnw | 88 +++++++++++++++++++++++++++++++++++++++-- inst/doc/bugfixes.pdf |binary inst/doc/datasets.pdf |binary inst/doc/getstart.pdf |binary inst/doc/packagesizes.txt | 2 inst/doc/replicated.pdf |binary inst/doc/shapefiles.pdf |binary inst/doc/spatstatlocalsize.txt | 13 ++++++ inst/doc/updates.Rnw | 65 +++++++++++++++++++++++++++++- inst/doc/updates.pdf |binary man/macros/defns.Rd | 1 man/spatstat.family.Rd | 1 vignettes/bugfixes.Rnw | 88 +++++++++++++++++++++++++++++++++++++++-- vignettes/updates.Rnw | 65 +++++++++++++++++++++++++++++- 22 files changed, 398 insertions(+), 48 deletions(-)
Title: Optimal Test Design Approach to Fixed and Adaptive Test
Construction
Description: Uses the optimal test design approach by Birnbaum (1968, ISBN:9781593119348) and
van der Linden (2018) <doi:10.1201/9781315117430> to construct fixed, adaptive, and parallel tests.
Supports the following mixed-integer programming (MIP) solver packages: 'lpsymphony', 'Rsymphony',
'gurobi', 'lpSolve', and 'Rglpk'. The 'gurobi' package is not available from CRAN; see <https://www.gurobi.com/downloads/>.
Author: Seung W. Choi [aut, cre] ,
Sangdon Lim [aut]
Maintainer: Seung W. Choi <schoi@austin.utexas.edu>
Diff between TestDesign versions 1.3.0 dated 2022-03-10 and 1.3.1 dated 2022-04-01
DESCRIPTION | 16 ++++++++-------- MD5 | 20 +++++++++++--------- NEWS.md | 6 ++++++ R/constraint_functions.R | 19 ++++++++++++++++--- R/extensions.R | 3 --- build/vignette.rds |binary inst/doc/constraints.html | 1 + inst/doc/rsymphony.html | 1 + inst/doc/split.html | 1 + inst/sticker |only man/figures |only man/plot-methods.Rd | 4 ---- 12 files changed, 44 insertions(+), 27 deletions(-)
Title: Species Sensitivity Distributions
Description: Species sensitivity distributions are cumulative probability
distributions which are fitted to toxicity concentrations for
different species as described by Posthuma et al.(2001)
<isbn:9781566705783>. The ssdtools package uses Maximum Likelihood to
fit distributions such as the gamma, log-logistic, log-normal and
Weibull to censored and/or weighted data. Multiple distributions can
be averaged using Akaike Information Criteria. Confidence intervals
on hazard concentrations and proportions are produced by parametric
bootstrapping.
Author: Joe Thorley [aut, cre, ctr] ,
Carl Schwarz [aut, ctr],
Rebecca Fisher [ctb],
David Fox [ctb],
Angeline Tillmanns [ctb],
Ali Azizishirazi [ctb],
Kathleen McTavish [ctb],
Heather Thompson [ctb],
Andy Teucher [ctb],
Emilie Doussantousse [ctb],
Stephanie [...truncated...]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between ssdtools versions 0.3.7 dated 2021-10-27 and 1.0.0 dated 2022-04-01
ssdtools-0.3.7/ssdtools/R/burrIII2.R |only ssdtools-0.3.7/ssdtools/R/dpqr.R |only ssdtools-0.3.7/ssdtools/R/llog.R |only ssdtools-0.3.7/ssdtools/R/pareto.R |only ssdtools-0.3.7/ssdtools/R/release.R |only ssdtools-0.3.7/ssdtools/data/boron_dists.rda |only ssdtools-0.3.7/ssdtools/data/boron_hc5.rda |only ssdtools-0.3.7/ssdtools/data/boron_lnorm.rda |only ssdtools-0.3.7/ssdtools/data/fluazinam_dists.rda |only ssdtools-0.3.7/ssdtools/data/fluazinam_lnorm.rda |only ssdtools-0.3.7/ssdtools/data/fluazinam_pred.rda |only ssdtools-0.3.7/ssdtools/data/test_data.rda |only ssdtools-0.3.7/ssdtools/demo |only ssdtools-0.3.7/ssdtools/inst/extdata |only ssdtools-0.3.7/ssdtools/man/autoplot.fitdist.Rd |only ssdtools-0.3.7/ssdtools/man/boron_dists.Rd |only ssdtools-0.3.7/ssdtools/man/boron_hc5.Rd |only ssdtools-0.3.7/ssdtools/man/boron_lnorm.Rd |only ssdtools-0.3.7/ssdtools/man/burrIII2.Rd |only ssdtools-0.3.7/ssdtools/man/burrIII3.Rd |only ssdtools-0.3.7/ssdtools/man/fluazinam_dists.Rd |only ssdtools-0.3.7/ssdtools/man/fluazinam_lnorm.Rd |only ssdtools-0.3.7/ssdtools/man/fluazinam_pred.Rd |only ssdtools-0.3.7/ssdtools/man/gamma.Rd |only ssdtools-0.3.7/ssdtools/man/geom_ssd.Rd |only ssdtools-0.3.7/ssdtools/man/gompertz.Rd |only ssdtools-0.3.7/ssdtools/man/is.fitdist.Rd |only ssdtools-0.3.7/ssdtools/man/is.fitdistcens.Rd |only ssdtools-0.3.7/ssdtools/man/is.fitdistscens.Rd |only ssdtools-0.3.7/ssdtools/man/lgumbel.Rd |only ssdtools-0.3.7/ssdtools/man/llogis.Rd |only ssdtools-0.3.7/ssdtools/man/lnorm.Rd |only ssdtools-0.3.7/ssdtools/man/nobs.fitdist.Rd |only ssdtools-0.3.7/ssdtools/man/npars.Rd |only ssdtools-0.3.7/ssdtools/man/pareto.Rd |only ssdtools-0.3.7/ssdtools/man/predict.fitdist.Rd |only ssdtools-0.3.7/ssdtools/man/test_data.Rd |only ssdtools-0.3.7/ssdtools/man/weibull.Rd |only ssdtools-0.3.7/ssdtools/src/gamma.cpp |only ssdtools-0.3.7/ssdtools/src/lnorm.cpp |only ssdtools-0.3.7/ssdtools/src/logis.cpp |only ssdtools-0.3.7/ssdtools/src/weibull.cpp |only ssdtools-0.3.7/ssdtools/tests/testthat/test-burrIII2.R |only ssdtools-0.3.7/ssdtools/tests/testthat/test-llog.R |only ssdtools-0.3.7/ssdtools/tests/testthat/test-pareto.R |only ssdtools-0.3.7/ssdtools/tests/testthat/test-test-data.R |only ssdtools-1.0.0/ssdtools/DESCRIPTION | 120 + ssdtools-1.0.0/ssdtools/MD5 | 511 +++++-- ssdtools-1.0.0/ssdtools/NAMESPACE | 206 ++- ssdtools-1.0.0/ssdtools/NEWS.md | 198 +++ ssdtools-1.0.0/ssdtools/R/RcppExports.R | 92 - ssdtools-1.0.0/ssdtools/R/augment.R |only ssdtools-1.0.0/ssdtools/R/autoplot.R | 43 ssdtools-1.0.0/ssdtools/R/bcanz.R |only ssdtools-1.0.0/ssdtools/R/boot.R | 75 - ssdtools-1.0.0/ssdtools/R/burrlioz.R |only ssdtools-1.0.0/ssdtools/R/burrrIII3.R | 112 - ssdtools-1.0.0/ssdtools/R/censor.R |only ssdtools-1.0.0/ssdtools/R/censored.R |only ssdtools-1.0.0/ssdtools/R/chk.R |only ssdtools-1.0.0/ssdtools/R/cis.R | 29 ssdtools-1.0.0/ssdtools/R/coef.R | 17 ssdtools-1.0.0/ssdtools/R/convergence.R |only ssdtools-1.0.0/ssdtools/R/d.R |only ssdtools-1.0.0/ssdtools/R/data.R | 141 -- ssdtools-1.0.0/ssdtools/R/devtools-helpers.R |only ssdtools-1.0.0/ssdtools/R/dists.R |only ssdtools-1.0.0/ssdtools/R/estimates.R |only ssdtools-1.0.0/ssdtools/R/exposure.R | 21 ssdtools-1.0.0/ssdtools/R/fit-burrlioz.R |only ssdtools-1.0.0/ssdtools/R/fit.R | 246 ++- ssdtools-1.0.0/ssdtools/R/gamma.R | 78 - ssdtools-1.0.0/ssdtools/R/getters.R |only ssdtools-1.0.0/ssdtools/R/ggplot.R | 214 ++- ssdtools-1.0.0/ssdtools/R/ggproto.R | 85 - 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Title: Armadillo Client for the Armadillo Service
Description: A set of functions to be able to manage data shared on a
'MOLGENIS Armadillo' storage server ('MinIO').
Author: Mariska Slofstra [aut, cre] ,
Sido Haakma [aut] ,
Tommy de Boer [aut] ,
Fleur Kelpin [aut] ,
Morris Swertz [aut]
Maintainer: Mariska Slofstra <m.k.slofstra@umcg.nl>
Diff between MolgenisArmadillo versions 1.0.3 dated 2021-10-12 and 1.1.3 dated 2022-04-01
DESCRIPTION | 24 +++++++++++----- MD5 | 45 +++++++++++++++++++------------ NAMESPACE | 2 + NEWS.md | 15 ++++++++++ R/auth.R | 4 ++ R/object.R | 1 R/package.R |only R/utils.R | 19 +++++++++++++ build/vignette.rds |binary inst/doc/MolgenisArmadillo.html | 1 inst/doc/create_resources.Rmd |only inst/doc/create_resources.html |only inst/doc/creating_data_subsets.Rmd | 26 ++++++++++++++--- inst/doc/creating_data_subsets.html | 1 inst/doc/install_packages.Rmd |only inst/doc/install_packages.html |only man/MolgenisArmadillo-package.Rd | 3 +- man/armadillo.install_packages.Rd |only man/armadillo.whitelist_packages.Rd |only tests/testthat/test-object.R | 3 +- tests/testthat/test-package.R |only tests/testthat/test-utils.R |only vignettes/MolgenisArmadillo.Rmd.orig | 1 vignettes/create_resources.Rmd |only vignettes/create_resources.Rmd.orig |only vignettes/creating_data_subsets.Rmd | 26 ++++++++++++++--- vignettes/creating_data_subsets.Rmd.orig | 2 - vignettes/install_packages.Rmd |only vignettes/install_packages.Rmd.orig |only vignettes/pre-render.R | 4 ++ 30 files changed, 140 insertions(+), 37 deletions(-)
More information about MolgenisArmadillo at CRAN
Permanent link
Title: Create an HTML Dashboard to Visualize Data from MAF File
Description: Mutation Annotation Format (MAF) is a tabular data format used for storing genetic mutation data.
For example, The Cancer Genome Atlas (TCGA) project has made MAF files from each project publicly available.
This package contains a set of tools to easily create an HTML dashboard to summarize and visualize data from MAF file.
The resulting HTML file serves as a self-contained report that can be used to explore the result.
Author: Ashish Jain [aut, cre],
Mayank Tandon [aut],
Frederick National Laboratory For Cancer Research [cph]
Maintainer: Ashish Jain <jain.ashishjain1@gmail.com>
Diff between MAFDash versions 0.2.0 dated 2022-02-04 and 0.2.1 dated 2022-04-01
DESCRIPTION | 6 MD5 | 16 +- R/getMAFDataTCGA.R | 2 R/helperFunctions.R | 4 inst/doc/MAFDash.R | 69 ++++---- inst/doc/MAFDash.Rmd | 21 +- inst/doc/MAFDash.html | 388 ++------------------------------------------------ man/getMAFdataTCGA.Rd | 2 vignettes/MAFDash.Rmd | 21 +- 9 files changed, 89 insertions(+), 440 deletions(-)
Title: Truncated Positive Normal Model and Extensions
Description: Provide data generation and estimation tools for the truncated positive normal
model discussed in Gomez, Olmos, Varela and Bolfarine (2018) <doi:10.1007/s11766-018-3354-x>, the
slash truncated positive normal distribution discussed in Gomez, Gallardo and Santoro (2021)
<doi:10.3390/sym13112164>, the bimodal truncated positive normal distribution discussed in
Gomez et al. (2022) <doi:10.3390/sym14040665> and the flexible truncated positive normal model.
Author: Diego Gallardo [aut, cre],
Hector J. Gomez [aut],
Yolanda M. Gomez [aut]
Maintainer: Diego Gallardo <diego.gallardo@uda.cl>
Diff between tpn versions 1.1 dated 2021-10-13 and 1.2 dated 2022-04-01
DESCRIPTION | 15 ++++++++------- INDEX | 2 ++ MD5 | 34 +++++++++++++++++++++------------- NAMESPACE | 4 +++- NEWS.md | 3 +++ R/choose.ftpn.R |only R/dbtpn.R | 2 +- R/dftpn.R |only R/est.btpn.R | 2 +- R/est.ftpn.R |only R/est.stpn.R | 2 -- R/pbtpn.R | 2 +- R/pftpn.R |only R/qftpn.R |only R/rbtpn.R | 2 +- R/rftpn.R |only man/btpn.Rd | 6 +++--- man/est.btpn.Rd | 6 +++--- man/est.ftpn.Rd |only man/est.stpn.Rd | 2 +- man/ftpn.Rd |only man/stpn.Rd | 2 +- 22 files changed, 49 insertions(+), 35 deletions(-)
Title: Tools and Statistical Procedures in Plant Science
Description: The 'inti' package is part of the 'inkaverse' project for developing
different procedures and tools used in plant science and experimental designs.
The mean aim of the package is to support researchers during the planning of
experiments and data collection (tarpuy()), data analysis and graphics (yupana())
, and technical writing.
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] ,
QuipoLab [ctb],
Inkaverse [cph]
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between inti versions 0.5.4 dated 2022-02-22 and 0.5.5 dated 2022-04-01
inti-0.5.4/inti/inst/yupana/rsconnect/shinyapps.io/flavjack/yupanapro.dcf |only inti-0.5.5/inti/DESCRIPTION | 8 inti-0.5.5/inti/MD5 | 53 - inti-0.5.5/inti/NEWS.md | 16 inti-0.5.5/inti/R/outliers_remove.R | 2 inti-0.5.5/inti/R/plot_diag.R | 6 inti-0.5.5/inti/R/tarpuy_design.R | 57 +- inti-0.5.5/inti/R/utils.R | 4 inti-0.5.5/inti/R/yupana.R | 1 inti-0.5.5/inti/R/yupana_import.R | 12 inti-0.5.5/inti/build/partial.rdb |binary inti-0.5.5/inti/build/vignette.rds |binary inti-0.5.5/inti/inst/doc/apps.html | 225 +++++++- inti-0.5.5/inti/inst/doc/heritability.html | 212 +++++++ inti-0.5.5/inti/inst/doc/policy.html | 275 +++++++++- inti-0.5.5/inti/inst/doc/rticles.html | 264 ++++++++- inti-0.5.5/inti/inst/doc/tarpuy.html | 226 +++++++- inti-0.5.5/inti/inst/doc/yupana.html | 184 ++++++ inti-0.5.5/inti/inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy-test.dcf |only inti-0.5.5/inti/inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy.dcf | 6 inti-0.5.5/inti/inst/tarpuy/server.R | 49 + inti-0.5.5/inti/inst/tarpuy/ui.R | 50 - inti-0.5.5/inti/inst/tarpuy/www/auth.R | 10 inti-0.5.5/inti/inst/yupana/rsconnect/shinyapps.io/flavjack/yupana-test.dcf |only inti-0.5.5/inti/inst/yupana/rsconnect/shinyapps.io/flavjack/yupana.dcf | 6 inti-0.5.5/inti/inst/yupana/www/auth.R | 8 inti-0.5.5/inti/man/plot_diag.Rd | 2 inti-0.5.5/inti/man/tarpuy_design.Rd | 2 inti-0.5.5/inti/man/yupana_import.Rd | 2 29 files changed, 1510 insertions(+), 170 deletions(-)
Title: Network Analysis and Visualization
Description: Routines for simple graphs and network analysis. It can
handle large graphs very well and provides functions for generating random
and regular graphs, graph visualization, centrality methods and much more.
Author: See AUTHORS file.
Maintainer: Tamas Nepusz <ntamas@gmail.com>
Diff between igraph versions 1.2.11 dated 2022-01-04 and 1.3.0 dated 2022-04-01
igraph-1.2.11/igraph/src/CHOLMOD.diff |only igraph-1.2.11/igraph/src/DensityGrid.cpp |only igraph-1.2.11/igraph/src/DensityGrid.h |only igraph-1.2.11/igraph/src/DensityGrid_3d.cpp |only igraph-1.2.11/igraph/src/DensityGrid_3d.h |only igraph-1.2.11/igraph/src/NetDataTypes.cpp |only igraph-1.2.11/igraph/src/NetDataTypes.h |only igraph-1.2.11/igraph/src/NetRoutines.cpp |only igraph-1.2.11/igraph/src/NetRoutines.h |only igraph-1.2.11/igraph/src/SuiteSparse_config |only igraph-1.2.11/igraph/src/adjlist.c |only igraph-1.2.11/igraph/src/arpack.c |only igraph-1.2.11/igraph/src/array.c |only igraph-1.2.11/igraph/src/array.pmt |only igraph-1.2.11/igraph/src/atlas-edges.h |only igraph-1.2.11/igraph/src/atlas.c |only igraph-1.2.11/igraph/src/attributes.c |only igraph-1.2.11/igraph/src/basic_query.c |only igraph-1.2.11/igraph/src/bfgs.c |only igraph-1.2.11/igraph/src/bigint.c |only igraph-1.2.11/igraph/src/bigint.h |only igraph-1.2.11/igraph/src/bignum.c |only igraph-1.2.11/igraph/src/bignum.h |only igraph-1.2.11/igraph/src/bipartite.c |only igraph-1.2.11/igraph/src/blas.c |only igraph-1.2.11/igraph/src/bliss |only igraph-1.2.11/igraph/src/bliss.cc |only igraph-1.2.11/igraph/src/cattributes.c |only igraph-1.2.11/igraph/src/centrality.c |only igraph-1.2.11/igraph/src/cliquer |only igraph-1.2.11/igraph/src/cliques.c |only igraph-1.2.11/igraph/src/clustertool.cpp |only igraph-1.2.11/igraph/src/cocitation.c |only igraph-1.2.11/igraph/src/cohesive_blocks.c |only igraph-1.2.11/igraph/src/coloring.c |only igraph-1.2.11/igraph/src/community.c |only igraph-1.2.11/igraph/src/community_leiden.c |only igraph-1.2.11/igraph/src/complex.c |only igraph-1.2.11/igraph/src/components.c |only igraph-1.2.11/igraph/src/conversion.c |only igraph-1.2.11/igraph/src/cores.c |only igraph-1.2.11/igraph/src/cs |only igraph-1.2.11/igraph/src/debug.h |only igraph-1.2.11/igraph/src/decomposition.c |only igraph-1.2.11/igraph/src/degree_sequence.cpp |only igraph-1.2.11/igraph/src/dgetv0.f |only igraph-1.2.11/igraph/src/distances.c |only igraph-1.2.11/igraph/src/dlaqrb.f |only igraph-1.2.11/igraph/src/dmout.f |only igraph-1.2.11/igraph/src/dnaitr.f |only igraph-1.2.11/igraph/src/dnapps.f |only igraph-1.2.11/igraph/src/dnaup2.f |only igraph-1.2.11/igraph/src/dnaupd.f |only igraph-1.2.11/igraph/src/dnconv.f |only igraph-1.2.11/igraph/src/dneigh.f |only igraph-1.2.11/igraph/src/dneupd.f |only igraph-1.2.11/igraph/src/dngets.f |only igraph-1.2.11/igraph/src/dotproduct.c |only igraph-1.2.11/igraph/src/dqueue.c |only igraph-1.2.11/igraph/src/dqueue.pmt |only igraph-1.2.11/igraph/src/drl_Node.h |only igraph-1.2.11/igraph/src/drl_Node_3d.h |only igraph-1.2.11/igraph/src/drl_graph.cpp |only igraph-1.2.11/igraph/src/drl_graph.h |only igraph-1.2.11/igraph/src/drl_graph_3d.cpp |only igraph-1.2.11/igraph/src/drl_graph_3d.h |only igraph-1.2.11/igraph/src/drl_layout.cpp |only igraph-1.2.11/igraph/src/drl_layout.h |only igraph-1.2.11/igraph/src/drl_layout_3d.cpp |only igraph-1.2.11/igraph/src/drl_layout_3d.h |only igraph-1.2.11/igraph/src/drl_parse.cpp |only igraph-1.2.11/igraph/src/drl_parse.h |only igraph-1.2.11/igraph/src/dsaitr.f |only igraph-1.2.11/igraph/src/dsapps.f |only igraph-1.2.11/igraph/src/dsaup2.f |only igraph-1.2.11/igraph/src/dsaupd.f |only igraph-1.2.11/igraph/src/dsconv.f |only igraph-1.2.11/igraph/src/dseigt.f |only igraph-1.2.11/igraph/src/dsesrt.f |only igraph-1.2.11/igraph/src/dseupd.f |only igraph-1.2.11/igraph/src/dsgets.f |only igraph-1.2.11/igraph/src/dsortc.f |only igraph-1.2.11/igraph/src/dsortr.f |only igraph-1.2.11/igraph/src/dstatn.f |only igraph-1.2.11/igraph/src/dstats.f |only igraph-1.2.11/igraph/src/dstqrb.f |only igraph-1.2.11/igraph/src/dvout.f |only igraph-1.2.11/igraph/src/eigen.c |only igraph-1.2.11/igraph/src/embedding.c |only igraph-1.2.11/igraph/src/fast_community.c |only igraph-1.2.11/igraph/src/feedback_arc_set.c |only igraph-1.2.11/igraph/src/flow.c |only igraph-1.2.11/igraph/src/foreign-dl-header.h |only igraph-1.2.11/igraph/src/foreign-dl-lexer.c |only igraph-1.2.11/igraph/src/foreign-dl-lexer.l |only igraph-1.2.11/igraph/src/foreign-dl-parser.c |only igraph-1.2.11/igraph/src/foreign-dl-parser.h |only igraph-1.2.11/igraph/src/foreign-dl-parser.y |only igraph-1.2.11/igraph/src/foreign-gml-header.h |only igraph-1.2.11/igraph/src/foreign-gml-lexer.c |only igraph-1.2.11/igraph/src/foreign-gml-lexer.l |only igraph-1.2.11/igraph/src/foreign-gml-parser.c |only igraph-1.2.11/igraph/src/foreign-gml-parser.h |only igraph-1.2.11/igraph/src/foreign-gml-parser.y |only igraph-1.2.11/igraph/src/foreign-graphml.c |only igraph-1.2.11/igraph/src/foreign-lgl-header.h |only igraph-1.2.11/igraph/src/foreign-lgl-lexer.c |only igraph-1.2.11/igraph/src/foreign-lgl-lexer.l |only igraph-1.2.11/igraph/src/foreign-lgl-parser.c |only igraph-1.2.11/igraph/src/foreign-lgl-parser.h |only igraph-1.2.11/igraph/src/foreign-lgl-parser.y |only igraph-1.2.11/igraph/src/foreign-ncol-header.h |only igraph-1.2.11/igraph/src/foreign-ncol-lexer.c |only igraph-1.2.11/igraph/src/foreign-ncol-lexer.l |only igraph-1.2.11/igraph/src/foreign-ncol-parser.c |only igraph-1.2.11/igraph/src/foreign-ncol-parser.h |only igraph-1.2.11/igraph/src/foreign-ncol-parser.y |only igraph-1.2.11/igraph/src/foreign-pajek-header.h |only igraph-1.2.11/igraph/src/foreign-pajek-lexer.c |only igraph-1.2.11/igraph/src/foreign-pajek-lexer.l |only igraph-1.2.11/igraph/src/foreign-pajek-parser.c |only igraph-1.2.11/igraph/src/foreign-pajek-parser.h |only igraph-1.2.11/igraph/src/foreign-pajek-parser.y |only igraph-1.2.11/igraph/src/foreign.c |only igraph-1.2.11/igraph/src/forestfire.c |only igraph-1.2.11/igraph/src/fortran_intrinsics.c |only igraph-1.2.11/igraph/src/games.c |only igraph-1.2.11/igraph/src/gengraph_box_list.cpp |only igraph-1.2.11/igraph/src/gengraph_box_list.h |only igraph-1.2.11/igraph/src/gengraph_definitions.h |only igraph-1.2.11/igraph/src/gengraph_degree_sequence.cpp |only igraph-1.2.11/igraph/src/gengraph_degree_sequence.h |only igraph-1.2.11/igraph/src/gengraph_graph_molloy_hash.cpp |only igraph-1.2.11/igraph/src/gengraph_graph_molloy_hash.h |only igraph-1.2.11/igraph/src/gengraph_graph_molloy_optimized.cpp |only igraph-1.2.11/igraph/src/gengraph_graph_molloy_optimized.h |only igraph-1.2.11/igraph/src/gengraph_hash.h |only igraph-1.2.11/igraph/src/gengraph_header.h |only igraph-1.2.11/igraph/src/gengraph_mr-connected.cpp |only igraph-1.2.11/igraph/src/gengraph_powerlaw.cpp |only igraph-1.2.11/igraph/src/gengraph_powerlaw.h |only igraph-1.2.11/igraph/src/gengraph_qsort.h |only igraph-1.2.11/igraph/src/gengraph_random.cpp |only igraph-1.2.11/igraph/src/gengraph_random.h |only igraph-1.2.11/igraph/src/gengraph_vertex_cover.h |only igraph-1.2.11/igraph/src/glet.c |only igraph-1.2.11/igraph/src/glpk_support.c |only igraph-1.2.11/igraph/src/gml_tree.c |only igraph-1.2.11/igraph/src/hacks.c |only igraph-1.2.11/igraph/src/heap.c |only igraph-1.2.11/igraph/src/heap.pmt |only igraph-1.2.11/igraph/src/hrg_dendro.h |only igraph-1.2.11/igraph/src/hrg_graph.h |only igraph-1.2.11/igraph/src/hrg_graph_simp.h |only igraph-1.2.11/igraph/src/hrg_rbtree.h |only igraph-1.2.11/igraph/src/hrg_splittree_eq.h |only igraph-1.2.11/igraph/src/igraph_arpack_internal.h |only igraph-1.2.11/igraph/src/igraph_blas_internal.h |only igraph-1.2.11/igraph/src/igraph_buckets.c |only igraph-1.2.11/igraph/src/igraph_cliquer.c |only igraph-1.2.11/igraph/src/igraph_cliquer.h |only igraph-1.2.11/igraph/src/igraph_error.c |only igraph-1.2.11/igraph/src/igraph_estack.c |only igraph-1.2.11/igraph/src/igraph_estack.h |only igraph-1.2.11/igraph/src/igraph_f2c.h |only igraph-1.2.11/igraph/src/igraph_fixed_vectorlist.c |only igraph-1.2.11/igraph/src/igraph_flow_internal.h |only igraph-1.2.11/igraph/src/igraph_glpk_support.h |only igraph-1.2.11/igraph/src/igraph_gml_tree.h |only igraph-1.2.11/igraph/src/igraph_grid.c |only igraph-1.2.11/igraph/src/igraph_hacks_internal.h |only igraph-1.2.11/igraph/src/igraph_handle_exceptions.h |only igraph-1.2.11/igraph/src/igraph_hashtable.c |only igraph-1.2.11/igraph/src/igraph_heap.c |only igraph-1.2.11/igraph/src/igraph_hrg.cc |only igraph-1.2.11/igraph/src/igraph_hrg_types.cc |only igraph-1.2.11/igraph/src/igraph_interrupt_internal.h |only igraph-1.2.11/igraph/src/igraph_isoclasses.h |only igraph-1.2.11/igraph/src/igraph_lapack_internal.h |only igraph-1.2.11/igraph/src/igraph_marked_queue.c |only igraph-1.2.11/igraph/src/igraph_marked_queue.h |only igraph-1.2.11/igraph/src/igraph_math.h |only igraph-1.2.11/igraph/src/igraph_psumtree.c |only igraph-1.2.11/igraph/src/igraph_set.c |only igraph-1.2.11/igraph/src/igraph_stack.c |only igraph-1.2.11/igraph/src/igraph_strvector.c |only igraph-1.2.11/igraph/src/igraph_threading.h |only igraph-1.2.11/igraph/src/igraph_trie.c |only igraph-1.2.11/igraph/src/igraph_types_internal.h |only igraph-1.2.11/igraph/src/igraph_version.h |only igraph-1.2.11/igraph/src/infomap.cc |only igraph-1.2.11/igraph/src/infomap_FlowGraph.cc |only igraph-1.2.11/igraph/src/infomap_FlowGraph.h |only igraph-1.2.11/igraph/src/infomap_Greedy.cc |only igraph-1.2.11/igraph/src/infomap_Greedy.h |only igraph-1.2.11/igraph/src/infomap_Node.cc |only igraph-1.2.11/igraph/src/infomap_Node.h |only igraph-1.2.11/igraph/src/interrupt.c |only igraph-1.2.11/igraph/src/iterators.c |only igraph-1.2.11/igraph/src/ivout.f |only igraph-1.2.11/igraph/src/lad.c |only igraph-1.2.11/igraph/src/lapack.c |only igraph-1.2.11/igraph/src/layout.c |only igraph-1.2.11/igraph/src/layout_dh.c |only igraph-1.2.11/igraph/src/layout_fr.c |only igraph-1.2.11/igraph/src/layout_gem.c |only igraph-1.2.11/igraph/src/layout_kk.c |only igraph-1.2.11/igraph/src/lsap.c |only igraph-1.2.11/igraph/src/matching.c |only igraph-1.2.11/igraph/src/math.c |only igraph-1.2.11/igraph/src/matrix.c |only igraph-1.2.11/igraph/src/matrix.pmt |only igraph-1.2.11/igraph/src/maximal_cliques.c |only igraph-1.2.11/igraph/src/maximal_cliques_template.h |only igraph-1.2.11/igraph/src/memory.c |only igraph-1.2.11/igraph/src/microscopic_update.c |only igraph-1.2.11/igraph/src/mixing.c |only igraph-1.2.11/igraph/src/motifs.c |only igraph-1.2.11/igraph/src/operators.c |only igraph-1.2.11/igraph/src/optimal_modularity.c |only igraph-1.2.11/igraph/src/other.c |only igraph-1.2.11/igraph/src/paths.c |only igraph-1.2.11/igraph/src/plfit |only igraph-1.2.11/igraph/src/pottsmodel_2.cpp |only igraph-1.2.11/igraph/src/pottsmodel_2.h |only igraph-1.2.11/igraph/src/progress.c |only igraph-1.2.11/igraph/src/prpack |only igraph-1.2.11/igraph/src/prpack.cpp |only igraph-1.2.11/igraph/src/prpack.h |only igraph-1.2.11/igraph/src/pstdint.h |only igraph-1.2.11/igraph/src/qsort.c |only igraph-1.2.11/igraph/src/qsort_r.c |only igraph-1.2.11/igraph/src/random.c |only igraph-1.2.11/igraph/src/random_walk.c |only igraph-1.2.11/igraph/src/sbm.c |only igraph-1.2.11/igraph/src/scan.c |only igraph-1.2.11/igraph/src/scg.c |only igraph-1.2.11/igraph/src/scg_approximate_methods.c |only igraph-1.2.11/igraph/src/scg_exact_scg.c |only igraph-1.2.11/igraph/src/scg_headers.h |only igraph-1.2.11/igraph/src/scg_kmeans.c |only igraph-1.2.11/igraph/src/scg_optimal_method.c |only igraph-1.2.11/igraph/src/scg_utils.c |only igraph-1.2.11/igraph/src/second.f |only igraph-1.2.11/igraph/src/separators.c |only igraph-1.2.11/igraph/src/simpleraytracer |only igraph-1.2.11/igraph/src/sir.c |only igraph-1.2.11/igraph/src/spanning_trees.c |only igraph-1.2.11/igraph/src/sparsemat.c |only igraph-1.2.11/igraph/src/spectral_properties.c |only igraph-1.2.11/igraph/src/spmatrix.c |only igraph-1.2.11/igraph/src/st-cuts.c |only igraph-1.2.11/igraph/src/stack.pmt |only igraph-1.2.11/igraph/src/stat.h |only igraph-1.2.11/igraph/src/statusbar.c |only igraph-1.2.11/igraph/src/structural_properties.c |only igraph-1.2.11/igraph/src/structural_properties_internal.h |only igraph-1.2.11/igraph/src/structure_generators.c |only igraph-1.2.11/igraph/src/sugiyama.c |only igraph-1.2.11/igraph/src/topology.c |only igraph-1.2.11/igraph/src/triangles.c |only igraph-1.2.11/igraph/src/triangles_template.h |only igraph-1.2.11/igraph/src/triangles_template1.h |only igraph-1.2.11/igraph/src/type_indexededgelist.c |only igraph-1.2.11/igraph/src/types.c |only igraph-1.2.11/igraph/src/uuid |only igraph-1.2.11/igraph/src/vector.c |only igraph-1.2.11/igraph/src/vector.pmt |only igraph-1.2.11/igraph/src/vector_ptr.c |only igraph-1.2.11/igraph/src/version.c |only igraph-1.2.11/igraph/src/visitors.c |only igraph-1.2.11/igraph/src/walktrap.cpp |only igraph-1.2.11/igraph/src/walktrap_communities.cpp |only igraph-1.2.11/igraph/src/walktrap_communities.h |only igraph-1.2.11/igraph/src/walktrap_graph.cpp |only igraph-1.2.11/igraph/src/walktrap_graph.h |only igraph-1.2.11/igraph/src/walktrap_heap.cpp |only igraph-1.2.11/igraph/src/walktrap_heap.h |only igraph-1.2.11/igraph/src/wrap.f |only igraph-1.2.11/igraph/src/zeroin.c |only igraph-1.2.11/igraph/tests/testthat/test_degree.sequence.game.R |only igraph-1.3.0/igraph/DESCRIPTION | 23 igraph-1.3.0/igraph/MD5 | 1519 +- igraph-1.3.0/igraph/NAMESPACE | 30 igraph-1.3.0/igraph/NEWS.md | 126 igraph-1.3.0/igraph/R/adjacency.R | 4 igraph-1.3.0/igraph/R/auto.R | 1244 +- igraph-1.3.0/igraph/R/bipartite.R | 7 igraph-1.3.0/igraph/R/centrality.R | 704 + igraph-1.3.0/igraph/R/centralization.R | 44 igraph-1.3.0/igraph/R/cliques.R | 145 igraph-1.3.0/igraph/R/coloring.R |only igraph-1.3.0/igraph/R/community.R | 203 igraph-1.3.0/igraph/R/components.R | 51 igraph-1.3.0/igraph/R/conversion.R | 116 igraph-1.3.0/igraph/R/data_frame.R | 2 igraph-1.3.0/igraph/R/degseq.R | 35 igraph-1.3.0/igraph/R/efficiency.R |only igraph-1.3.0/igraph/R/embedding.R | 1 igraph-1.3.0/igraph/R/eulerian.R |only igraph-1.3.0/igraph/R/flow.R | 51 igraph-1.3.0/igraph/R/games.R | 62 igraph-1.3.0/igraph/R/hrg.R | 2 igraph-1.3.0/igraph/R/indexing.R | 32 igraph-1.3.0/igraph/R/interface.R | 19 igraph-1.3.0/igraph/R/iterators.R | 25 igraph-1.3.0/igraph/R/layout.R | 5 igraph-1.3.0/igraph/R/layout_drl.R | 37 igraph-1.3.0/igraph/R/make.R | 383 igraph-1.3.0/igraph/R/motifs.R | 2 igraph-1.3.0/igraph/R/nexus.R | 178 igraph-1.3.0/igraph/R/operators.R | 4 igraph-1.3.0/igraph/R/other.R | 4 igraph-1.3.0/igraph/R/par.R | 13 igraph-1.3.0/igraph/R/paths.R | 13 igraph-1.3.0/igraph/R/plot.R | 34 igraph-1.3.0/igraph/R/plot.common.R | 17 igraph-1.3.0/igraph/R/plot.shapes.R | 86 igraph-1.3.0/igraph/R/print.R | 11 igraph-1.3.0/igraph/R/random_walk.R | 36 igraph-1.3.0/igraph/R/rewire.R | 49 igraph-1.3.0/igraph/R/sgm.R | 2 igraph-1.3.0/igraph/R/simple.R | 32 igraph-1.3.0/igraph/R/socnet.R | 34 igraph-1.3.0/igraph/R/sparsedf.R | 2 igraph-1.3.0/igraph/R/structural.properties.R | 992 - igraph-1.3.0/igraph/R/tkplot.R | 16 igraph-1.3.0/igraph/R/topology.R | 88 igraph-1.3.0/igraph/R/trees.R |only igraph-1.3.0/igraph/R/zzz-deprecate.R | 2 igraph-1.3.0/igraph/build/partial.rdb |binary igraph-1.3.0/igraph/configure | 1210 -- igraph-1.3.0/igraph/configure.ac | 82 igraph-1.3.0/igraph/demo/centrality.R | 4 igraph-1.3.0/igraph/demo/community.R | 10 igraph-1.3.0/igraph/inst/NEWS.md | 126 igraph-1.3.0/igraph/inst/README.md | 4 igraph-1.3.0/igraph/inst/benchmarks/time_sgm.R | 2 igraph-1.3.0/igraph/man/alpha_centrality.Rd | 2 igraph-1.3.0/igraph/man/articulation_points.Rd | 32 igraph-1.3.0/igraph/man/as.directed.Rd | 19 igraph-1.3.0/igraph/man/as.matrix.igraph.Rd |only igraph-1.3.0/igraph/man/automorphism_group.Rd |only igraph-1.3.0/igraph/man/automorphisms.Rd | 22 igraph-1.3.0/igraph/man/betweenness.Rd | 40 igraph-1.3.0/igraph/man/bfs.Rd | 20 igraph-1.3.0/igraph/man/bipartite_projection.Rd | 2 igraph-1.3.0/igraph/man/canonical_permutation.Rd | 9 igraph-1.3.0/igraph/man/centr_betw.Rd | 4 igraph-1.3.0/igraph/man/centr_degree_tmax.Rd | 5 igraph-1.3.0/igraph/man/cliques.Rd | 18 igraph-1.3.0/igraph/man/closeness.Rd | 33 igraph-1.3.0/igraph/man/cluster_edge_betweenness.Rd | 14 igraph-1.3.0/igraph/man/cluster_fast_greedy.Rd | 14 igraph-1.3.0/igraph/man/cluster_label_prop.Rd | 12 igraph-1.3.0/igraph/man/cluster_leading_eigen.Rd | 11 igraph-1.3.0/igraph/man/cluster_leiden.Rd | 11 igraph-1.3.0/igraph/man/cluster_louvain.Rd | 19 igraph-1.3.0/igraph/man/cluster_optimal.Rd | 11 igraph-1.3.0/igraph/man/cluster_spinglass.Rd | 14 igraph-1.3.0/igraph/man/cluster_walktrap.Rd | 15 igraph-1.3.0/igraph/man/components.Rd | 2 igraph-1.3.0/igraph/man/count_motifs.Rd | 2 igraph-1.3.0/igraph/man/dfs.Rd | 15 igraph-1.3.0/igraph/man/distances.Rd | 45 igraph-1.3.0/igraph/man/dominator_tree.Rd | 2 igraph-1.3.0/igraph/man/dot-apply_modifiers.Rd |only igraph-1.3.0/igraph/man/dot-extract_constructor_and_modifiers.Rd |only igraph-1.3.0/igraph/man/each_edge.Rd | 20 igraph-1.3.0/igraph/man/eigen_centrality.Rd | 5 igraph-1.3.0/igraph/man/embed_laplacian_matrix.Rd | 3 igraph-1.3.0/igraph/man/feedback_arc_set.Rd |only igraph-1.3.0/igraph/man/global_efficiency.Rd |only igraph-1.3.0/igraph/man/graph_from_adj_list.Rd | 2 igraph-1.3.0/igraph/man/graph_from_adjacency_matrix.Rd | 4 igraph-1.3.0/igraph/man/graph_from_atlas.Rd | 4 igraph-1.3.0/igraph/man/graph_from_edgelist.Rd | 4 igraph-1.3.0/igraph/man/graph_from_literal.Rd | 4 igraph-1.3.0/igraph/man/greedy_vertex_coloring.Rd |only igraph-1.3.0/igraph/man/harmonic_centrality.Rd |only igraph-1.3.0/igraph/man/has_eulerian_path.Rd |only igraph-1.3.0/igraph/man/identical_graphs.Rd | 19 igraph-1.3.0/igraph/man/igraph_options.Rd | 2 igraph-1.3.0/igraph/man/is_degseq.Rd | 15 igraph-1.3.0/igraph/man/is_graphical.Rd | 21 igraph-1.3.0/igraph/man/is_tree.Rd |only igraph-1.3.0/igraph/man/layout_with_drl.Rd | 23 igraph-1.3.0/igraph/man/make_.Rd | 2 igraph-1.3.0/igraph/man/make_bipartite_graph.Rd | 14 igraph-1.3.0/igraph/man/make_chordal_ring.Rd | 4 igraph-1.3.0/igraph/man/make_empty_graph.Rd | 4 igraph-1.3.0/igraph/man/make_from_prufer.Rd |only igraph-1.3.0/igraph/man/make_full_bipartite_graph.Rd | 6 igraph-1.3.0/igraph/man/make_full_citation_graph.Rd | 4 igraph-1.3.0/igraph/man/make_full_graph.Rd | 4 igraph-1.3.0/igraph/man/make_graph.Rd | 4 igraph-1.3.0/igraph/man/make_lattice.Rd | 4 igraph-1.3.0/igraph/man/make_ring.Rd | 4 igraph-1.3.0/igraph/man/make_star.Rd | 4 igraph-1.3.0/igraph/man/make_tree.Rd | 6 igraph-1.3.0/igraph/man/match_vertices.Rd | 2 igraph-1.3.0/igraph/man/matching.Rd | 4 igraph-1.3.0/igraph/man/max_cardinality.Rd | 7 igraph-1.3.0/igraph/man/modularity.igraph.Rd | 26 igraph-1.3.0/igraph/man/page_rank.Rd | 53 igraph-1.3.0/igraph/man/plot.common.Rd | 5 igraph-1.3.0/igraph/man/power_centrality.Rd | 2 igraph-1.3.0/igraph/man/random_walk.Rd | 28 igraph-1.3.0/igraph/man/realize_degseq.Rd |only igraph-1.3.0/igraph/man/sample_correlated_gnp.Rd | 14 igraph-1.3.0/igraph/man/sample_degseq.Rd | 21 igraph-1.3.0/igraph/man/sample_forestfire.Rd | 4 igraph-1.3.0/igraph/man/sample_pref.Rd | 4 igraph-1.3.0/igraph/man/sample_spanning_tree.Rd |only igraph-1.3.0/igraph/man/sample_traits_callaway.Rd | 4 igraph-1.3.0/igraph/man/sample_tree.Rd |only igraph-1.3.0/igraph/man/shapes.Rd | 8 igraph-1.3.0/igraph/man/simplify.Rd | 15 igraph-1.3.0/igraph/man/subcomponent.Rd | 2 igraph-1.3.0/igraph/man/to_prufer.Rd |only igraph-1.3.0/igraph/man/vertex.shape.pie.Rd | 2 igraph-1.3.0/igraph/man/weighted_cliques.Rd |only igraph-1.3.0/igraph/man/which_multiple.Rd | 12 igraph-1.3.0/igraph/man/which_mutual.Rd | 4 igraph-1.3.0/igraph/src/Makevars.in | 12 igraph-1.3.0/igraph/src/Makevars.ucrt | 8 igraph-1.3.0/igraph/src/Makevars.win | 8 igraph-1.3.0/igraph/src/config.h.in | 30 igraph-1.3.0/igraph/src/core |only igraph-1.3.0/igraph/src/igraph-win.def |only igraph-1.3.0/igraph/src/include/igraph.h | 2 igraph-1.3.0/igraph/src/include/igraph_adjlist.h | 162 igraph-1.3.0/igraph/src/include/igraph_arpack.h | 37 igraph-1.3.0/igraph/src/include/igraph_array_pmt.h | 26 igraph-1.3.0/igraph/src/include/igraph_attributes.h | 305 igraph-1.3.0/igraph/src/include/igraph_bipartite.h | 108 igraph-1.3.0/igraph/src/include/igraph_blas.h | 20 igraph-1.3.0/igraph/src/include/igraph_centrality.h | 256 igraph-1.3.0/igraph/src/include/igraph_cliques.h | 104 igraph-1.3.0/igraph/src/include/igraph_cocitation.h | 48 igraph-1.3.0/igraph/src/include/igraph_cohesive_blocks.h | 11 igraph-1.3.0/igraph/src/include/igraph_coloring.h | 3 igraph-1.3.0/igraph/src/include/igraph_community.h | 286 igraph-1.3.0/igraph/src/include/igraph_complex.h | 120 igraph-1.3.0/igraph/src/include/igraph_components.h | 36 igraph-1.3.0/igraph/src/include/igraph_constants.h | 16 igraph-1.3.0/igraph/src/include/igraph_constructors.h | 76 igraph-1.3.0/igraph/src/include/igraph_conversion.h | 42 igraph-1.3.0/igraph/src/include/igraph_datatype.h | 6 igraph-1.3.0/igraph/src/include/igraph_decls.h | 22 igraph-1.3.0/igraph/src/include/igraph_dqueue.h | 2 igraph-1.3.0/igraph/src/include/igraph_dqueue_pmt.h | 28 igraph-1.3.0/igraph/src/include/igraph_eigen.h | 89 igraph-1.3.0/igraph/src/include/igraph_embedding.h | 43 igraph-1.3.0/igraph/src/include/igraph_epidemics.h | 11 igraph-1.3.0/igraph/src/include/igraph_error.h | 395 igraph-1.3.0/igraph/src/include/igraph_eulerian.h |only igraph-1.3.0/igraph/src/include/igraph_export.h |only igraph-1.3.0/igraph/src/include/igraph_flow.h | 179 igraph-1.3.0/igraph/src/include/igraph_foreign.h | 80 igraph-1.3.0/igraph/src/include/igraph_games.h | 338 igraph-1.3.0/igraph/src/include/igraph_graphicality.h |only igraph-1.3.0/igraph/src/include/igraph_graphlets.h | 30 igraph-1.3.0/igraph/src/include/igraph_heap_pmt.h | 18 igraph-1.3.0/igraph/src/include/igraph_hrg.h | 72 igraph-1.3.0/igraph/src/include/igraph_interface.h | 73 igraph-1.3.0/igraph/src/include/igraph_interrupt.h | 8 igraph-1.3.0/igraph/src/include/igraph_iterators.h | 137 igraph-1.3.0/igraph/src/include/igraph_lapack.h | 69 igraph-1.3.0/igraph/src/include/igraph_layout.h | 242 igraph-1.3.0/igraph/src/include/igraph_lsap.h | 7 igraph-1.3.0/igraph/src/include/igraph_matching.h | 26 igraph-1.3.0/igraph/src/include/igraph_matrix.h | 8 igraph-1.3.0/igraph/src/include/igraph_matrix_pmt.h | 259 igraph-1.3.0/igraph/src/include/igraph_memory.h | 20 igraph-1.3.0/igraph/src/include/igraph_microscopic_update.h | 46 igraph-1.3.0/igraph/src/include/igraph_mixing.h | 28 igraph-1.3.0/igraph/src/include/igraph_motifs.h | 50 igraph-1.3.0/igraph/src/include/igraph_neighborhood.h | 20 igraph-1.3.0/igraph/src/include/igraph_nongraph.h | 32 igraph-1.3.0/igraph/src/include/igraph_operators.h | 66 igraph-1.3.0/igraph/src/include/igraph_paths.h | 242 igraph-1.3.0/igraph/src/include/igraph_pmt.h | 16 igraph-1.3.0/igraph/src/include/igraph_progress.h | 16 igraph-1.3.0/igraph/src/include/igraph_psumtree.h | 27 igraph-1.3.0/igraph/src/include/igraph_qsort.h | 8 igraph-1.3.0/igraph/src/include/igraph_random.h | 73 igraph-1.3.0/igraph/src/include/igraph_scan.h | 60 igraph-1.3.0/igraph/src/include/igraph_scg.h | 167 igraph-1.3.0/igraph/src/include/igraph_separators.h | 24 igraph-1.3.0/igraph/src/include/igraph_sparsemat.h | 431 igraph-1.3.0/igraph/src/include/igraph_spmatrix.h | 75 igraph-1.3.0/igraph/src/include/igraph_stack.h | 4 igraph-1.3.0/igraph/src/include/igraph_stack_pmt.h | 22 igraph-1.3.0/igraph/src/include/igraph_statusbar.h | 10 igraph-1.3.0/igraph/src/include/igraph_structural.h | 165 igraph-1.3.0/igraph/src/include/igraph_strvector.h | 60 igraph-1.3.0/igraph/src/include/igraph_threading.h |only igraph-1.3.0/igraph/src/include/igraph_threading.h.in | 12 igraph-1.3.0/igraph/src/include/igraph_topology.h | 239 igraph-1.3.0/igraph/src/include/igraph_transitivity.h | 53 igraph-1.3.0/igraph/src/include/igraph_types.h | 56 igraph-1.3.0/igraph/src/include/igraph_vector.h | 37 igraph-1.3.0/igraph/src/include/igraph_vector_pmt.h | 289 igraph-1.3.0/igraph/src/include/igraph_vector_ptr.h | 58 igraph-1.3.0/igraph/src/include/igraph_vector_type.h | 1 igraph-1.3.0/igraph/src/include/igraph_version.h |only igraph-1.3.0/igraph/src/include/igraph_version.h.in | 10 igraph-1.3.0/igraph/src/include/igraph_visitor.h | 40 igraph-1.3.0/igraph/src/init.c | 128 igraph-1.3.0/igraph/src/rinterface.c | 5519 ++++++---- igraph-1.3.0/igraph/src/rinterface_extra.c | 7 igraph-1.3.0/igraph/src/rrandom.c |only igraph-1.3.0/igraph/src/rrandom.h |only igraph-1.3.0/igraph/src/vendor |only igraph-1.3.0/igraph/tests/testthat/test-random_walk.R | 57 igraph-1.3.0/igraph/tests/testthat/test-vs-es.R | 14 igraph-1.3.0/igraph/tests/testthat/test_as.directed.R | 8 igraph-1.3.0/igraph/tests/testthat/test_assortativity.R | 2 igraph-1.3.0/igraph/tests/testthat/test_attributes.R | 9 igraph-1.3.0/igraph/tests/testthat/test_average.path.length.R | 46 igraph-1.3.0/igraph/tests/testthat/test_betweenness.R | 23 igraph-1.3.0/igraph/tests/testthat/test_bipartite.projection.R | 2 igraph-1.3.0/igraph/tests/testthat/test_bridges.R |only igraph-1.3.0/igraph/tests/testthat/test_bug-1019624.R | 2 igraph-1.3.0/igraph/tests/testthat/test_bug-1032819.R | 2 igraph-1.3.0/igraph/tests/testthat/test_bug-1033045.R | 2 igraph-1.3.0/igraph/tests/testthat/test_bug-1073705-indexing.R | 6 igraph-1.3.0/igraph/tests/testthat/test_bug-1073800-clique.R | 4 igraph-1.3.0/igraph/tests/testthat/test_bug-154.R |only igraph-1.3.0/igraph/tests/testthat/test_cliques.R | 14 igraph-1.3.0/igraph/tests/testthat/test_clusters.R | 20 igraph-1.3.0/igraph/tests/testthat/test_coloring.R |only igraph-1.3.0/igraph/tests/testthat/test_correlated.R | 36 igraph-1.3.0/igraph/tests/testthat/test_count.multiple.R | 7 igraph-1.3.0/igraph/tests/testthat/test_degree.R | 2 igraph-1.3.0/igraph/tests/testthat/test_degseq.R |only igraph-1.3.0/igraph/tests/testthat/test_diameter.R | 10 igraph-1.3.0/igraph/tests/testthat/test_efficiency.R |only igraph-1.3.0/igraph/tests/testthat/test_eulerian.R |only igraph-1.3.0/igraph/tests/testthat/test_forestfire.R | 2 igraph-1.3.0/igraph/tests/testthat/test_get.incidence.R | 2 igraph-1.3.0/igraph/tests/testthat/test_get.shortest.paths.R | 15 igraph-1.3.0/igraph/tests/testthat/test_graph.adjlist.R | 2 igraph-1.3.0/igraph/tests/testthat/test_graph.bfs.R | 73 igraph-1.3.0/igraph/tests/testthat/test_graph.bipartite.R | 14 igraph-1.3.0/igraph/tests/testthat/test_graph.compose.R | 2 igraph-1.3.0/igraph/tests/testthat/test_graph.density.R | 2 igraph-1.3.0/igraph/tests/testthat/test_graph.edgelist.R | 10 igraph-1.3.0/igraph/tests/testthat/test_graph.mincut.R | 15 igraph-1.3.0/igraph/tests/testthat/test_graphlets.R | 2 igraph-1.3.0/igraph/tests/testthat/test_identical_graphs.R |only igraph-1.3.0/igraph/tests/testthat/test_indexing.R | 12 igraph-1.3.0/igraph/tests/testthat/test_is.bipartite.R | 4 igraph-1.3.0/igraph/tests/testthat/test_is.chordal.R | 3 igraph-1.3.0/igraph/tests/testthat/test_label.propagation.community.R | 12 igraph-1.3.0/igraph/tests/testthat/test_layout.kk.R | 8 igraph-1.3.0/igraph/tests/testthat/test_layout.sugiyama.R |only igraph-1.3.0/igraph/tests/testthat/test_matching.R |only igraph-1.3.0/igraph/tests/testthat/test_multilevel.community.R | 4 igraph-1.3.0/igraph/tests/testthat/test_neighbors.R | 9 igraph-1.3.0/igraph/tests/testthat/test_operators3.R | 7 igraph-1.3.0/igraph/tests/testthat/test_rewire.R |only igraph-1.3.0/igraph/tests/testthat/test_scan.R | 4 igraph-1.3.0/igraph/tests/testthat/test_sgm.R | 4 igraph-1.3.0/igraph/tests/testthat/test_topology.R |only igraph-1.3.0/igraph/tests/testthat/test_trees.R |only igraph-1.3.0/igraph/tests/testthat/test_triangles.R | 3 igraph-1.3.0/igraph/tests/testthat/test_weighted_cliques.R |only 569 files changed, 12238 insertions(+), 8925 deletions(-)
Title: Search Contributed R Packages, Sort by Package
Description: Search contributed R packages, sort by package.
Author: Spencer Graves [cre, aut, cph],
Sundar Dorai-Raj [aut], and Romain Francois [ctb]
Maintainer: Spencer Graves <spencer.graves@prodsyse.com>
Diff between sos versions 2.1-0 dated 2021-06-20 and 2.1-4 dated 2022-04-01
DESCRIPTION | 10 MD5 | 100 +- NAMESPACE | 62 - NEWS | 57 - R/CRAN.R | 76 +- R/Extract.findFn.R | 36 R/Ops.findFn.R | 68 - R/PackageSum2.R | 290 +++---- R/PackageSummary.R | 108 +- R/back2ForwardSlash.R | 8 R/findFn.R | 524 +++++++------- R/findFn2.R | 182 ++--- R/grepFn.R | 32 R/hits.R | 14 R/installPackages.R | 115 +-- R/intersectFindFn.R | 132 +-- R/packageSum.R | 122 +-- R/print.findFn.R | 549 +++++++-------- R/print.packageSum.R | 558 +++++++-------- R/sortFindFn.R | 108 +- R/summary.findFn.R | 94 +- R/unionFindFn.R | 130 +-- R/writeFindFn2xls.R | 334 ++++----- README.md | 144 +-- build/vignette.rds |binary inst/WORDLIST | 132 +-- inst/brew/default/results.brew.html | 232 +++--- inst/brew/iframe/results.brew.html | 190 ++--- inst/doc/sos.R | 394 +++++----- inst/doc/sos.Rnw | 1124 +++++++++++++++---------------- inst/doc/sos.pdf |binary inst/js/sorttable.js | 984 +++++++++++++-------------- inst/tests/example_back2ForwardSlash.txt | 4 man/CRAN.Rd | 214 ++--- man/Extract.findFn.Rd | 122 +-- man/PackageSum2.Rd | 278 +++---- man/PackageSummary.Rd | 176 ++-- man/back2ForwardSlash.Rd | 160 ++-- man/findFn.Rd | 485 ++++++------- man/grepFn.Rd | 122 +-- man/hits.Rd | 102 +- man/installPackages.Rd | 206 ++--- man/packageSum.Rd | 266 +++---- man/print.findFn.Rd | 154 ++-- man/print.packageSum.Rd | 177 ++-- man/sortFindFn.Rd | 96 +- man/summary.findFn.Rd | 198 ++--- man/unionFindFn.Rd | 226 +++--- man/writeFindFn2xls.Rd | 136 +-- vignettes/RJournal.sty | 466 ++++++------ vignettes/sos.Rnw | 1124 +++++++++++++++---------------- 51 files changed, 5837 insertions(+), 5784 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-03-31 0.2.2
2022-03-17 0.2.1
2021-09-01 0.2.0
2021-04-22 0.1.1