Files in bodkan/spannr
A Simulation Framework for Spatiotemporal Population Genetics

.Rbuildignore

.binder/apt.txt

.binder/install.R

.binder/postBuild

.binder/runtime.txt

.codecov.yml

.covrignore

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.github/workflows/test-coverage.yaml

.gitignore

.lintr

DESCRIPTION

LICENSE

LICENSE.md

Makefile

NAMESPACE

NEWS.md R/compilation.R R/extensions.R R/extract_parameters.R R/geometry.R R/interface.R R/msprime.R R/print.R R/shiny.R R/slendr-package.R R/slim.R R/tree-sequences.R R/tspop.R R/utils.R R/visualization.R R/zzz.R README.Rmd README.md

_pkgdown.yml

cran-comments.md

docs/404.html

docs/CNAME

docs/LICENSE-text.html

docs/LICENSE.html

docs/apple-touch-icon-120x120.png

docs/apple-touch-icon-152x152.png

docs/apple-touch-icon-180x180.png

docs/apple-touch-icon-60x60.png

docs/apple-touch-icon-76x76.png

docs/apple-touch-icon.png

docs/articles/images/demographic_models.jpg

docs/articles/images/f4_tree.jpg

docs/articles/images/geneflow_graph.jpg

docs/articles/images/haak_map.jpg

docs/articles/images/original_ex4.png

docs/articles/images/shiny_graph.jpg

docs/articles/images/shiny_maps.jpg

docs/articles/index.html

docs/articles/vignette-00-installation.html

docs/articles/vignette-01-tutorial.html

docs/articles/vignette-01-tutorial_files/figure-html/plot_afr-1.png

docs/articles/vignette-01-tutorial_files/figure-html/plot_ana-1.png

docs/articles/vignette-01-tutorial_files/figure-html/plot_europe_anatolia-1.png

docs/articles/vignette-01-tutorial_files/figure-html/plot_maps-1.png

docs/articles/vignette-01-tutorial_files/figure-html/plot_model-1.png

docs/articles/vignette-01-tutorial_files/figure-html/plot_ooa-1.png

docs/articles/vignette-01-tutorial_files/figure-html/plot_ooa_migration-1.png

docs/articles/vignette-01-tutorial_files/figure-html/plot_yam_migr-1.png

docs/articles/vignette-02-grid-model.html

docs/articles/vignette-02-grid-model_files/figure-html/demes_africa-1.png

docs/articles/vignette-02-grid-model_files/figure-html/demes_grid-1.png

docs/articles/vignette-02-grid-model_files/figure-html/map_america-1.png

docs/articles/vignette-02-grid-model_files/figure-html/model_america-1.png

docs/articles/vignette-02-grid-model_files/figure-html/model_map_america-1.png

docs/articles/vignette-03-interactions.html

docs/articles/vignette-03-interactions_files/figure-html/plot_interactions-1.png

docs/articles/vignette-03-interactions_files/figure-html/pop_ranges-1.png

docs/articles/vignette-04-nonspatial-models.html

docs/articles/vignette-04-nonspatial-models_files/figure-html/non-spatial-graph_sampling-1.png

docs/articles/vignette-04-nonspatial-models_files/figure-html/non-spatial_graph-1.png

docs/articles/vignette-05-tree-sequences.html

docs/articles/vignette-05-tree-sequences_files/figure-html/introgression_graph-1.png

docs/articles/vignette-05-tree-sequences_files/figure-html/plot_ggtree-1.png

docs/articles/vignette-05-tree-sequences_files/figure-html/ts_nea_distributions-1.png

docs/articles/vignette-05-tree-sequences_files/figure-html/ts_nea_trajectory-1.png

docs/articles/vignette-05-tree-sequences_files/figure-html/ts_vs_admixr-1.png

docs/articles/vignette-06-locations.html

docs/articles/vignette-06-locations_files/figure-html/demographic_model-1.png

docs/articles/vignette-06-locations_files/figure-html/level1_branches-1.png

docs/articles/vignette-06-locations_files/figure-html/map_epochs-1.png

docs/articles/vignette-06-locations_files/figure-html/plot_ancestors_levels_ana-1.png

docs/articles/vignette-06-locations_files/figure-html/plot_ancestors_time-1.png

docs/articles/vignette-06-locations_files/figure-html/slendr_map_ts-1.png

docs/articles/vignette-06-locations_files/figure-html/smooth_distance_fits-1.png

docs/articles/vignette-06-locations_files/figure-html/spatial_maps-1.png

docs/articles/vignette-07-backends.html

docs/articles/vignette-07-backends_files/figure-html/msprime_slim_afs-1.png

docs/articles/vignette-07-backends_files/figure-html/msprime_slim_f4_distributions-1.png

docs/articles/vignette-07-backends_files/figure-html/msprime_slim_f4ratio_distributions-1.png

docs/articles/vignette-07-backends_files/figure-html/unnamed-chunk-5-1.png

docs/articles/vignette-07-backends_files/figure-html/unnamed-chunk-5-2.png

docs/articles/vignette-07-engines.html

docs/articles/vignette-07-engines_files/figure-html/msprime_slim_afs-1.png

docs/articles/vignette-07-engines_files/figure-html/msprime_slim_f4_distributions-1.png

docs/articles/vignette-07-engines_files/figure-html/msprime_slim_f4ratio_distributions-1.png

docs/articles/vignette-07-engines_files/figure-html/unnamed-chunk-5-1.png

docs/articles/vignette-07-engines_files/figure-html/unnamed-chunk-5-2.png

docs/articles/vignette-08-nonslendr-tskit.html

docs/articles/vignette-08-nonslendr-tskit_files/figure-html/nonslendr_ancestries-1.png

docs/articles/vignette-08-nonslendr-tskit_files/figure-html/nonslendr_locations-1.png

docs/articles/vignette-08-nonslendr-tskit_files/figure-html/nonslendr_tree-1.png

docs/articles/vignette-09-paper.html

docs/articles/vignette-09-paper_files/figure-html/figure_ex1-1.png

docs/articles/vignette-09-paper_files/figure-html/figure_ex2-1.png

docs/articles/vignette-09-paper_files/figure-html/figure_ex3-1.png

docs/articles/vignette-09-paper_files/figure-html/figure_ex4-1.png

docs/articles/vignette-10-tracts.html

docs/articles/vignette-10-tracts_files/figure-html/anc_prop_summary-1.png

docs/articles/vignette-10-tracts_files/figure-html/chrom_painting-1.png

docs/articles/vignette-10-tracts_files/figure-html/introgression_model-1.png

docs/articles/vignette-10-tracts_files/figure-html/tract_lengths-1.png

docs/articles/vignette-11-extensions.html

docs/articles/vignette-11-extensions_files/figure-html/introgression_divergence-1.png

docs/articles/vignette-11-extensions_files/figure-html/introgression_freqs-1.png

docs/articles/vignette-11-extensions_files/figure-html/introgression_model-1.png

docs/articles/vignette-11-extensions_files/figure-html/model_for_plot-1.png

docs/articles/vignette-11-extensions_files/figure-html/model_plot-1.png

docs/articles/vignette-11-extensions_files/figure-html/trajectories-1.png

docs/authors.html

docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js

docs/deps/bootstrap-5.2.2/bootstrap.bundle.min.js.map

docs/deps/bootstrap-5.2.2/bootstrap.min.css

docs/deps/bootstrap-5.3.1/bootstrap.bundle.min.js

docs/deps/bootstrap-5.3.1/bootstrap.bundle.min.js.map

docs/deps/bootstrap-5.3.1/bootstrap.min.css

docs/deps/bootstrap-5.3.1/font.css

docs/deps/bootstrap-5.3.1/fonts/07d40e985ad7c747025dabb9f22142c4.woff2

docs/deps/bootstrap-5.3.1/fonts/1Ptug8zYS_SKggPNyC0ITw.woff2

docs/deps/bootstrap-5.3.1/fonts/1Ptug8zYS_SKggPNyCAIT5lu.woff2

docs/deps/bootstrap-5.3.1/fonts/1Ptug8zYS_SKggPNyCIIT5lu.woff2

docs/deps/bootstrap-5.3.1/fonts/1Ptug8zYS_SKggPNyCMIT5lu.woff2

docs/deps/bootstrap-5.3.1/fonts/1Ptug8zYS_SKggPNyCkIT5lu.woff2

docs/deps/bootstrap-5.3.1/fonts/1f5e011d6aae0d98fc0518e1a303e99a.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCs6KVjbNBYlgoKcQ72j00.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCs6KVjbNBYlgoKcg72j00.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCs6KVjbNBYlgoKcw72j00.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCs6KVjbNBYlgoKew72j00.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCs6KVjbNBYlgoKfA72j00.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCs6KVjbNBYlgoKfw72.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCv6KVjbNBYlgoCxCvjs2yNL4U.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCv6KVjbNBYlgoCxCvjsGyN.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCv6KVjbNBYlgoCxCvjtGyNL4U.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCv6KVjbNBYlgoCxCvjvGyNL4U.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCv6KVjbNBYlgoCxCvjvWyNL4U.woff2

docs/deps/bootstrap-5.3.1/fonts/4iCv6KVjbNBYlgoCxCvjvmyNL4U.woff2

docs/deps/bootstrap-5.3.1/fonts/626330658504e338ee86aec8e957426b.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7jsDJT9g.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7ksDJT9g.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7nsDI.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7osDJT9g.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7psDJT9g.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7qsDJT9g.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK1dSBYKcSV-LCoeQqfX1RYOo3qPZ7rsDJT9g.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qN67lqDY.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qNK7lqDY.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qNa7lqDY.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qNq7lqDY.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qO67lqDY.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qOK7l.woff2

docs/deps/bootstrap-5.3.1/fonts/6xK3dSBYKcSV-LCoeQqfX1RYOo3qPK7lqDY.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rwkxduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rwlBduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rwlxdu.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rwmBduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rwmRduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rwmhduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3i54rwmxduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwkxduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwlBduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwlxdu.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwmBduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwmRduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwmhduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ig4vwmxduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwkxduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwlBduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwlxdu.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwmBduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwmRduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwmhduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/6xKydSBYKcSV-LCoeQqfX1RYOo3ik4zwmxduz8A.woff2

docs/deps/bootstrap-5.3.1/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvWNReuQ.woff2

docs/deps/bootstrap-5.3.1/fonts/CSR54z1Qlv-GDxkbKVQ_dFsvWNpeudwk.woff2

docs/deps/bootstrap-5.3.1/fonts/CSR64z1Qlv-GDxkbKVQ_fO4KTet_.woff2

docs/deps/bootstrap-5.3.1/fonts/CSR64z1Qlv-GDxkbKVQ_fOAKTQ.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_QiYsKILxRpg3hIP6sJ7fM7PqlONvQlMIXxw.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_QiYsKILxRpg3hIP6sJ7fM7PqlONvUlMI.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_QiYsKILxRpg3hIP6sJ7fM7PqlONvXlMIXxw.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_QiYsKILxRpg3hIP6sJ7fM7PqlONvYlMIXxw.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_QiYsKILxRpg3hIP6sJ7fM7PqlONvZlMIXxw.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_QiYsKILxRpg3hIP6sJ7fM7PqlONvalMIXxw.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_QiYsKILxRpg3hIP6sJ7fM7PqlONvblMIXxw.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_SiYsKILxRpg3hIP6sJ7fM7PqlM-vWjMY.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_SiYsKILxRpg3hIP6sJ7fM7PqlMOvWjMY.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_SiYsKILxRpg3hIP6sJ7fM7PqlMevWjMY.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_SiYsKILxRpg3hIP6sJ7fM7PqlMuvWjMY.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_SiYsKILxRpg3hIP6sJ7fM7PqlOevWjMY.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_SiYsKILxRpg3hIP6sJ7fM7PqlPevW.woff2

docs/deps/bootstrap-5.3.1/fonts/HI_SiYsKILxRpg3hIP6sJ7fM7PqlPuvWjMY.woff2

docs/deps/bootstrap-5.3.1/fonts/JTUSjIg1_i6t8kCHKm459W1hyzbi.woff2

docs/deps/bootstrap-5.3.1/fonts/JTUSjIg1_i6t8kCHKm459WRhyzbi.woff2

docs/deps/bootstrap-5.3.1/fonts/JTUSjIg1_i6t8kCHKm459WZhyzbi.woff2

docs/deps/bootstrap-5.3.1/fonts/JTUSjIg1_i6t8kCHKm459Wdhyzbi.woff2

docs/deps/bootstrap-5.3.1/fonts/JTUSjIg1_i6t8kCHKm459Wlhyw.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmEU9fABc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmEU9fBBc4.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmEU9fBxc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmEU9fCBc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmEU9fCRc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmEU9fChc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmEU9fCxc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmSU5fABc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmSU5fBBc4.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmSU5fBxc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmSU5fCBc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmSU5fCRc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmSU5fChc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmSU5fCxc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmWUlfABc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmWUlfBBc4.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmWUlfBxc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmWUlfCBc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmWUlfCRc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmWUlfChc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOlCnqEu92Fr1MmWUlfCxc4EsA.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOmCnqEu92Fr1Mu4WxKOzY.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOmCnqEu92Fr1Mu4mxK.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOmCnqEu92Fr1Mu5mxKOzY.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOmCnqEu92Fr1Mu72xKOzY.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOmCnqEu92Fr1Mu7GxKOzY.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOmCnqEu92Fr1Mu7WxKOzY.woff2

docs/deps/bootstrap-5.3.1/fonts/KFOmCnqEu92Fr1Mu7mxKOzY.woff2

docs/deps/bootstrap-5.3.1/fonts/QGYpz_kZZAGCONcK2A4bGOj8mNhN.woff2

docs/deps/bootstrap-5.3.1/fonts/S6u8w4BMUTPHjxsAUi-qJCY.woff2

docs/deps/bootstrap-5.3.1/fonts/S6u8w4BMUTPHjxsAXC-q.woff2

docs/deps/bootstrap-5.3.1/fonts/S6u9w4BMUTPHh6UVSwaPGR_p.woff2

docs/deps/bootstrap-5.3.1/fonts/S6u9w4BMUTPHh6UVSwiPGQ.woff2

docs/deps/bootstrap-5.3.1/fonts/S6u9w4BMUTPHh7USSwaPGR_p.woff2

docs/deps/bootstrap-5.3.1/fonts/S6u9w4BMUTPHh7USSwiPGQ.woff2

docs/deps/bootstrap-5.3.1/fonts/S6uyw4BMUTPHjx4wXg.woff2

docs/deps/bootstrap-5.3.1/fonts/S6uyw4BMUTPHjxAwXjeu.woff2

docs/deps/bootstrap-5.3.1/fonts/UcC73FwrK3iLTeHuS_fvQtMwCp50KnMa0ZL7SUc.woff2

docs/deps/bootstrap-5.3.1/fonts/UcC73FwrK3iLTeHuS_fvQtMwCp50KnMa1ZL7.woff2

docs/deps/bootstrap-5.3.1/fonts/UcC73FwrK3iLTeHuS_fvQtMwCp50KnMa1pL7SUc.woff2

docs/deps/bootstrap-5.3.1/fonts/UcC73FwrK3iLTeHuS_fvQtMwCp50KnMa25L7SUc.woff2

docs/deps/bootstrap-5.3.1/fonts/UcC73FwrK3iLTeHuS_fvQtMwCp50KnMa2JL7SUc.woff2

docs/deps/bootstrap-5.3.1/fonts/UcC73FwrK3iLTeHuS_fvQtMwCp50KnMa2ZL7SUc.woff2

docs/deps/bootstrap-5.3.1/fonts/UcC73FwrK3iLTeHuS_fvQtMwCp50KnMa2pL7SUc.woff2

docs/deps/bootstrap-5.3.1/fonts/XRXV3I6Li01BKofIMeaBXso.woff2

docs/deps/bootstrap-5.3.1/fonts/XRXV3I6Li01BKofINeaB.woff2

docs/deps/bootstrap-5.3.1/fonts/XRXV3I6Li01BKofIO-aBXso.woff2

docs/deps/bootstrap-5.3.1/fonts/XRXV3I6Li01BKofIOOaBXso.woff2

docs/deps/bootstrap-5.3.1/fonts/XRXV3I6Li01BKofIOuaBXso.woff2

docs/deps/bootstrap-5.3.1/fonts/c2f002b3a87d3f9bfeebb23d32cfd9f8.woff2

docs/deps/bootstrap-5.3.1/fonts/ee91700cdbf7ce16c054c2bb8946c736.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqW106F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWt06F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWtE6F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWtU6F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWtk6F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWu06F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWuU6F.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWuk6F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWvU6F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memtYaGs126MiZpBA-UFUIcVXSCEkx2cmqvXlWqWxU6F15M.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTS-muw.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTS2mu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTSCmu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTSGmu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTSKmu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTSOmu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTSumu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTSymu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTUGmu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/memvYaGs126MiZpBA-UvWbX2vVnXBbObj2OVTVOmu1aB.woff2

docs/deps/bootstrap-5.3.1/fonts/q5uGsou0JOdh94bfuQltOxU.woff2

docs/deps/bootstrap-5.3.1/fonts/q5uGsou0JOdh94bfvQlt.woff2

docs/deps/data-deps.txt

docs/deps/jquery-3.6.0/jquery-3.6.0.js

docs/deps/jquery-3.6.0/jquery-3.6.0.min.js

docs/deps/jquery-3.6.0/jquery-3.6.0.min.map

docs/favicon-16x16.png

docs/favicon-32x32.png

docs/favicon.ico

docs/index.html

docs/link.svg

docs/logo.png

docs/news/index.html

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/animate_model.html

docs/reference/area-1.png

docs/reference/area.html

docs/reference/as.phylo.slendr_phylo.html

docs/reference/check_dependencies.html

docs/reference/check_env.html

docs/reference/clear_env.html

docs/reference/compile_model-1.png

docs/reference/compile_model.html

docs/reference/distance-1.png

docs/reference/distance.html

docs/reference/expand_range-1.png

docs/reference/expand_range.html

docs/reference/explore_model.html

docs/reference/extract_parameters.html

docs/reference/figures/README-plot_gif-1.gif

docs/reference/figures/README-plot_gif-1.png

docs/reference/figures/README-plot_popmaps-1.png

docs/reference/figures/README-plot_regions-1.png

docs/reference/figures/README-plot_world-1.png

docs/reference/figures/logo.png

docs/reference/figures/shiny_graph.jpg

docs/reference/figures/shiny_maps.jpg

docs/reference/gene_flow-1.png

docs/reference/gene_flow.html

docs/reference/get_env.html

docs/reference/index.html

docs/reference/init_env.html

docs/reference/join.html

docs/reference/move-1.png

docs/reference/move.html

docs/reference/msprime.html

docs/reference/overlap.html

docs/reference/pipe.html

docs/reference/plot_map.html

docs/reference/plot_model-1.png

docs/reference/plot_model.html

docs/reference/population-1.png

docs/reference/population.html

docs/reference/print.slendr_pop.html

docs/reference/print.slendr_ts.html

docs/reference/read_model-1.png

docs/reference/read_model.html

docs/reference/region.html

docs/reference/reproject.html

docs/reference/resize-1.png

docs/reference/resize.html

docs/reference/schedule_sampling.html

docs/reference/set_dispersal-1.png

docs/reference/set_dispersal.html

docs/reference/set_range-1.png

docs/reference/set_range.html

docs/reference/setup_env.html

docs/reference/shrink_range-1.png

docs/reference/shrink_range.html

docs/reference/slendr.html

docs/reference/slim.html

docs/reference/substitute.html

docs/reference/substitute_values.html

docs/reference/subtract.html

docs/reference/summary.slendr_nodes.html

docs/reference/ts_afs.html

docs/reference/ts_ancestors.html

docs/reference/ts_coalesced.html

docs/reference/ts_descendants.html

docs/reference/ts_divergence.html

docs/reference/ts_diversity.html

docs/reference/ts_draw-1.png

docs/reference/ts_draw.html

docs/reference/ts_edges.html

docs/reference/ts_eigenstrat.html

docs/reference/ts_f4ratio.html

docs/reference/ts_fst.html

docs/reference/ts_genotypes.html

docs/reference/ts_ibd.html

docs/reference/ts_load.html

docs/reference/ts_metadata.html

docs/reference/ts_mutate.html

docs/reference/ts_names.html

docs/reference/ts_nodes.html

docs/reference/ts_phylo-1.png

docs/reference/ts_phylo.html

docs/reference/ts_read.html

docs/reference/ts_recapitate.html

docs/reference/ts_samples.html

docs/reference/ts_save.html

docs/reference/ts_segregating.html

docs/reference/ts_simplify.html

docs/reference/ts_table.html

docs/reference/ts_tajima.html

docs/reference/ts_tracts.html

docs/reference/ts_tree.html

docs/reference/ts_vcf.html

docs/reference/ts_write.html

docs/reference/world.html

docs/search.json

docs/sitemap.xml

generate_examples.R

inst/extdata/extension_introgression.txt

inst/extdata/extension_purifying.txt

inst/extdata/extension_sweep.txt

inst/extdata/extension_trajectory.txt

inst/extdata/extension_trajectory_params.txt

inst/extdata/models/introgression/checksums.tsv

inst/extdata/models/introgression/description.txt

inst/extdata/models/introgression/direction.txt

inst/extdata/models/introgression/geneflow.tsv

inst/extdata/models/introgression/generation_time.txt

inst/extdata/models/introgression/length.txt

inst/extdata/models/introgression/orig_length.txt

inst/extdata/models/introgression/populations.tsv

inst/extdata/models/introgression/ranges.rds

inst/extdata/models/introgression/script.py

inst/extdata/models/introgression/script.slim

inst/extdata/models/introgression/time_units.txt

inst/extdata/models/introgression_msprime.trees

inst/extdata/models/introgression_slim.trees

inst/extdata/models/msprime.trees

inst/naturalearth/ne_110m_land.zip

inst/pylib/pylib.py

inst/scripts/script.py

inst/scripts/script.slim

logo.R man/animate_model.Rd man/area.Rd man/as.phylo.slendr_phylo.Rd man/check_dependencies.Rd man/check_env.Rd man/clear_env.Rd man/compile_model.Rd man/distance.Rd man/examples/model_definition.R man/examples/spatial_functions.R man/expand_range.Rd man/explore_model.Rd man/extract_parameters.Rd

man/figures/README-plot_gif-1.gif

man/figures/README-plot_gif-1.png

man/figures/README-plot_popmaps-1.png

man/figures/README-plot_regions-1.png

man/figures/README-plot_world-1.png

man/figures/logo.png

man/figures/shiny_graph.jpg

man/figures/shiny_maps.jpg

man/gene_flow.Rd man/get_env.Rd man/init_env.Rd man/join.Rd man/move.Rd man/msprime.Rd man/overlap.Rd man/pipe.Rd man/plot_map.Rd man/plot_model.Rd man/population.Rd man/print.slendr_pop.Rd man/print.slendr_ts.Rd man/read_model.Rd man/region.Rd man/reproject.Rd man/resize.Rd man/schedule_sampling.Rd man/set_dispersal.Rd man/set_range.Rd man/setup_env.Rd man/shrink_range.Rd man/slendr.Rd man/slim.Rd man/substitute_values.Rd man/subtract.Rd man/summary.slendr_nodes.Rd man/ts_afs.Rd man/ts_ancestors.Rd man/ts_coalesced.Rd man/ts_descendants.Rd man/ts_divergence.Rd man/ts_diversity.Rd man/ts_draw.Rd man/ts_edges.Rd man/ts_eigenstrat.Rd man/ts_f4ratio.Rd man/ts_fst.Rd man/ts_genotypes.Rd man/ts_ibd.Rd man/ts_load.Rd man/ts_metadata.Rd man/ts_mutate.Rd man/ts_names.Rd man/ts_nodes.Rd man/ts_phylo.Rd man/ts_read.Rd man/ts_recapitate.Rd man/ts_samples.Rd man/ts_save.Rd man/ts_segregating.Rd man/ts_simplify.Rd man/ts_table.Rd man/ts_tajima.Rd man/ts_tracts.Rd man/ts_tree.Rd man/ts_vcf.Rd man/ts_write.Rd man/world.Rd

pkgdown/favicon/apple-touch-icon-120x120.png

pkgdown/favicon/apple-touch-icon-152x152.png

pkgdown/favicon/apple-touch-icon-180x180.png

pkgdown/favicon/apple-touch-icon-60x60.png

pkgdown/favicon/apple-touch-icon-76x76.png

pkgdown/favicon/apple-touch-icon.png

pkgdown/favicon/favicon-16x16.png

pkgdown/favicon/favicon-32x32.png

pkgdown/favicon/favicon.ico

slendr.Rproj

tests/testthat.R

tests/testthat/afs_Darwin.png

tests/testthat/afs_Darwin.tsv.gz

tests/testthat/afs_Linux.png

tests/testthat/afs_Linux.tsv.gz

tests/testthat/afs_Windows.png

tests/testthat/afs_Windows.tsv.gz

tests/testthat/distances.png

tests/testthat/distances.tsv.gz

tests/testthat/f4_Darwin.png

tests/testthat/f4_Darwin.tsv.gz

tests/testthat/f4_Linux.png

tests/testthat/f4_Linux.tsv.gz

tests/testthat/f4_Windows.png

tests/testthat/f4_Windows.tsv.gz

tests/testthat/f4ratio_Darwin.png

tests/testthat/f4ratio_Darwin.tsv.gz

tests/testthat/f4ratio_Linux.png

tests/testthat/f4ratio_Linux.tsv.gz

tests/testthat/f4ratio_Windows.png

tests/testthat/f4ratio_Windows.tsv.gz

tests/testthat/helper-functions.R

tests/testthat/manual_ts_nodes+edges+inds+pops+muts.py

tests/testthat/manual_ts_nodes+edges+inds+pops.py

tests/testthat/manual_ts_nodes+edges+inds.py

tests/testthat/manual_ts_nodes+edges.py

tests/testthat/map.rds

ubuntu_deps.txt

vignettes/.gitignore

vignettes/images/demographic_models.jpg

vignettes/images/f4_tree.jpg

vignettes/images/geneflow_graph.jpg

vignettes/images/haak_map.jpg

vignettes/images/original_ex4.png

vignettes/images/shiny_graph.jpg

vignettes/images/shiny_maps.jpg

vignettes/vignette-00-installation.Rmd vignettes/vignette-01-tutorial.Rmd vignettes/vignette-02-grid-model.Rmd vignettes/vignette-03-interactions.Rmd vignettes/vignette-04-nonspatial-models.Rmd vignettes/vignette-05-tree-sequences.Rmd vignettes/vignette-06-locations.Rmd vignettes/vignette-07-engines.Rmd vignettes/vignette-08-nonslendr-tskit.Rmd vignettes/vignette-09-paper.Rmd vignettes/vignette-10-tracts.Rmd vignettes/vignette-11-extensions.Rmd

bodkan/spannr documentation built on Dec. 19, 2024, 11:43 p.m.

rdrr.io home R language documentation Run R code online

CRAN packages Bioconductor packages R-Forge packages GitHub packages

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

bodkan/spannr
A Simulation Framework for Spatiotemporal Population Genetics

Files in bodkan/spannr
A Simulation Framework for Spatiotemporal Population Genetics

R Package Documentation

Browse R Packages

We want your feedback!

bodkan/spannr A Simulation Framework for Spatiotemporal Population Genetics

Files in bodkan/spannr A Simulation Framework for Spatiotemporal Population Genetics

R Package Documentation

Browse R Packages

We want your feedback!

bodkan/spannr
A Simulation Framework for Spatiotemporal Population Genetics

Files in bodkan/spannr
A Simulation Framework for Spatiotemporal Population Genetics