Package: Rpadrino 0.0.5
Sam Levin
Rpadrino: Interact with the 'PADRINO' IPM Database
'PADRINO' houses textual representations of Integral Projection Models which can be converted from their table format into full kernels to reproduce or extend an already published analysis. 'Rpadrino' is an R interface to this database. For more information on Integral Projection Models, see Easterling et al. (2000) <doi:10.1890/0012-9658(2000)081[0694:SSSAAN]2.0.CO;2>, Merow et al. (2013) <doi:10.1111/2041-210X.12146>, Rees et al. (2014) <doi:10.1111/1365-2656.12178>, and Metcalf et al. (2015) <doi:10.1111/2041-210X.12405>. See Levin et al. (2021) for more information on 'ipmr', the engine that powers model reconstruction <doi:10.1111/2041-210X.13683>.
Authors:
Rpadrino_0.0.5.tar.gz
Rpadrino_0.0.5.zip(r-4.5)Rpadrino_0.0.5.zip(r-4.4)Rpadrino_0.0.5.zip(r-4.3)
Rpadrino_0.0.5.tgz(r-4.4-any)Rpadrino_0.0.5.tgz(r-4.3-any)
Rpadrino_0.0.5.tar.gz(r-4.5-noble)Rpadrino_0.0.5.tar.gz(r-4.4-noble)
Rpadrino_0.0.5.tgz(r-4.4-emscripten)Rpadrino_0.0.5.tgz(r-4.3-emscripten)
Rpadrino.pdf |Rpadrino.html✨
Rpadrino/json (API)
NEWS
| # Install 'Rpadrino' in R: |
| install.packages('Rpadrino', repos = c('https://padrinodb.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/padrinodb/rpadrino/issues
- pdb - Selected models from the Padrino Database
Last updated 1 years agofrom:2a9a784d89. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 27 2024 |
| R-4.5-win | OK | Sep 27 2024 |
| R-4.5-linux | OK | Oct 27 2024 |
| R-4.4-win | OK | Oct 27 2024 |
| R-4.4-mac | OK | Oct 27 2024 |
| R-4.3-win | OK | Oct 27 2024 |
| R-4.3-mac | OK | Oct 27 2024 |
Exports::=.data%>%as_labelas_nameenquoenquosexprpdb_altitudepdb_angio_gymonpdb_appendix_linkpdb_authorspdb_citationspdb_classpdb_commentspdb_continentpdb_countrypdb_dicot_monocotpdb_doipdb_downloadpdb_durationpdb_ecoregionpdb_end_monthpdb_end_yearpdb_evict_typepdb_eviction_usedpdb_familypdb_genuspdb_has_agepdb_has_time_lagpdb_journalpdb_kingdompdb_latpdb_loadpdb_lonpdb_make_ipmpdb_make_proto_ipmpdb_new_fun_formpdb_number_populationspdb_orderpdb_org_typepdb_periodicitypdb_phylumpdb_population_namepdb_pub_yearpdb_reportpdb_savepdb_species_acceptedpdb_species_authorpdb_start_monthpdb_start_yearpdb_studied_sexpdb_subsetpdb_treatmentsymsyms
Dependencies:base64encbslibcachemclicolorspacecurldigestevaluateevdfansifarverfastmapfontawesomefsggplot2gluegtablehighrhtmltoolsipmrisobandjquerylibjsonliteknitrlabelinglatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellmvtnormnlmepillarpkgconfigpurrrR6rappdirsRColorBrewerRcpprlangrmarkdownsassscalestibbletinytextruncdistutf8vctrsviridisLitewithrxfunyaml
Data Cleaning and Troubleshooting
Rendered fromdata-cleaning.Rmdusingknitr::rmarkdownon Oct 27 2024.Last update: 2021-11-08
Started: 2021-10-26
Messages and Warnings in PADRINO
Rendered frompdb-msgs.Rmdusingknitr::rmarkdownon Oct 27 2024.Last update: 2022-04-28
Started: 2022-04-28
Modifying Stochastic IPMs in PADRINO
Rendered fromstoch-ipms.rmdusingknitr::rmarkdownon Oct 27 2024.Last update: 2023-09-09
Started: 2022-03-03
Rpadrino Introduction
Rendered frompadrino-intro.Rmdusingknitr::rmarkdownon Oct 27 2024.Last update: 2023-09-09
Started: 2019-01-13
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Selected models from the Padrino Database | pdb |
| Access pieces of metadata from a 'pdb' object | pdb_altitude pdb_angio_gymon pdb_appendix_link pdb_authors pdb_citations pdb_class pdb_comments pdb_continent pdb_country pdb_dicot_monocot pdb_doi pdb_duration pdb_ecoregion pdb_end_month pdb_end_year pdb_eviction_used pdb_evict_type pdb_family pdb_genus pdb_has_age pdb_has_time_lag pdb_journal pdb_kingdom pdb_lat pdb_lon pdb_number_populations pdb_order pdb_org_type pdb_periodicity pdb_phylum pdb_population_name pdb_pub_year pdb_report pdb_species_accepted pdb_species_author pdb_start_month pdb_start_year pdb_studied_sex pdb_treatment |
| Download PADRINO 'pdb' objects | pdb_download pdb_load pdb_save |
| Generate IPMs from Padrino objects | pdb_make_ipm |
| Generate proto_ipms from Padrino objects | pdb_make_proto_ipm |
| Subset a Padrino database object | pdb_subset |
| Print a 'pdb' object. | print.pdb print.pdb_proto_ipm_list |
| Padrino methods for `ipmr` generic functions | conv_plot.pdb_ipm domains.pdb_ipm domains.pdb_proto_ipm_list int_mesh.pdb_ipm is_conv_to_asymptotic.pdb_ipm kernel_formulae.pdb_ipm kernel_formulae.pdb_proto_ipm_list kernel_formulae<-.pdb_proto_ipm_list lambda.pdb_ipm left_ev.pdb_ipm make_iter_kernel.pdb_ipm mean_kernel.pdb_ipm parameters.pdb_ipm parameters.pdb_proto_ipm_list parameters<-.pdb_proto_ipm_list pdb_new_fun_form pop_state.pdb_ipm pop_state.pdb_proto_ipm_list right_ev.pdb_ipm vital_rate_exprs.pdb_ipm vital_rate_exprs.pdb_proto_ipm_list vital_rate_exprs<-.pdb_proto_ipm_list vital_rate_funs.pdb_ipm [.pdb_ipm |
