cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3568179.v1
title: Supplement 2. Documentation of database (BETYdb) used in the present study, including schema and contents.

description: File List bety.sql: subset of BETYdb database used in the present analysis. (MD5: 0560351a1ac737c324eb4fbaaa96bf49) dbdocumentation_users.pdf: BETYdb documentation. (MD5: a33ba4b340e2c7ca0745bfbf9239685e) Description Database Subset The file bety.sql contains the database schema and data used in the analysis. This is the same database that is included in the PEcAn 1.1 virtual machine found at http://hdl.handle.net/2142/34619 with source code found at: http://hdl.handle.net/2142/34655. This file contains the subset of the database used in the present analysis, including the data in Tables A1 and A2 as well as metadata tables and the database schema. This subset was generated from the production version of BETYdb using the script from the /bash/dump.db.subset.sh file in the PEcAn source code, which calls the mysqldump command to generate tables that can easily be imported using the command “/bash/create.db.subset.sh inst/extdata/bety.sql”. This is the same database that is included in the PEcAn 1.1 virtual machine. Figure S1 provides an illustration of the database schema, and the database user’s guide is provided as the file dbdocumentation_users.pdf. This subset was generated from the production version of BETYdb using the script from the PEcAn source/bash/dump.db.subset.sh. This database can be imported to mysql with the command /bash/create.db.subset.sh bety.sql. <br> Database Documentation dbdocumentation_users.pdf A comprehensive documentation of the database created to support PEcAn at the time that the analysis was generated. -- IMAGE: Please see in attached file. -- FIG. S1. Relationships among tables in BETYdb used to store data and metadata related to plant traits, yields, and ecosystem services. Detailed description of these tables can be found on the website; the documentation for 1.0 is contained in the appendices as dbdocumentation_users.pdf.
DOI: 10.6084/m9.figshare.3568176
title: Appendix A. Predator efficiency of prey capture.

description: Predator efficiency of prey capture.
DOI: 10.6084/m9.figshare.3568176.v1
title: Appendix A. Predator efficiency of prey capture.

description: Predator efficiency of prey capture.
DOI: 10.6084/m9.figshare.3568173
title: Appendix B. Experimental images.

description: Experimental images.
DOI: 10.6084/m9.figshare.3568173.v1
title: Appendix B. Experimental images.

description: Experimental images.
DOI: 10.6084/m9.figshare.3568170
title: Appendix C. Methods for chlorophyll a analysis.

description: Methods for chlorophyll a analysis.
DOI: 10.6084/m9.figshare.3568170.v1
title: Appendix C. Methods for chlorophyll a analysis.

description: Methods for chlorophyll a analysis.
DOI: 10.6084/m9.figshare.3568167
title: Appendix D. Macroalgal composition.

description: Macroalgal composition.
DOI: 10.6084/m9.figshare.3568167.v1
title: Appendix D. Macroalgal composition.

description: Macroalgal composition.
DOI: 10.6084/m9.figshare.3568164
title: Appendix E. Predator treatment effects on grazer size distributions.

description: Predator treatment effects on grazer size distributions.
DOI: 10.6084/m9.figshare.3568164.v1
title: Appendix E. Predator treatment effects on grazer size distributions.

description: Predator treatment effects on grazer size distributions.
DOI: 10.6084/m9.figshare.3568161
title: Appendix F. Effects of pinfish density on grazer feeding.

description: Effects of pinfish density on grazer feeding.
DOI: 10.6084/m9.figshare.3568158
title: Appendix A. Views of the Montferrier (Mon) site, near Montpellier, France.

description: Views of the Montferrier (Mon) site, near Montpellier, France.
DOI: 10.6084/m9.figshare.3568161.v1
title: Appendix F. Effects of pinfish density on grazer feeding.

description: Effects of pinfish density on grazer feeding.
DOI: 10.6084/m9.figshare.3568158.v1
title: Appendix A. Views of the Montferrier (Mon) site, near Montpellier, France.

description: Views of the Montferrier (Mon) site, near Montpellier, France.
DOI: 10.6084/m9.figshare.3568155
title: Appendix B. Drying and fungal symptoms on albino leaves.

description: Drying and fungal symptoms on albino leaves.
DOI: 10.6084/m9.figshare.3568155.v1
title: Appendix B. Drying and fungal symptoms on albino leaves.

description: Drying and fungal symptoms on albino leaves.
DOI: 10.6084/m9.figshare.3568152
title: Appendix C. Morpho-anatomical and biochemical comparison between albinos and green individuals at Boigneville (Boi), near Paris, France.

description: Morpho-anatomical and biochemical comparison between albinos and green individuals at Boigneville (Boi), near Paris, France.
DOI: 10.6084/m9.figshare.3568152.v1
title: Appendix C. Morpho-anatomical and biochemical comparison between albinos and green individuals at Boigneville (Boi), near Paris, France.

description: Morpho-anatomical and biochemical comparison between albinos and green individuals at Boigneville (Boi), near Paris, France.
DOI: 10.6084/m9.figshare.3568149
title: Appendix D. Leaf stomatal conductance and transpiration in response to vapor pressure deficit (VPD).

description: Leaf stomatal conductance and transpiration in response to vapor pressure deficit (VPD).
DOI: 10.6084/m9.figshare.3568146
title: Appendix E. Change in δ15N and C:N between March and June 2007 at Mon.

description: Change in δ15N and C:N between March and June 2007 at Mon.
DOI: 10.6084/m9.figshare.3568146.v1
title: Appendix E. Change in δ15N and C:N between March and June 2007 at Mon.

description: Change in δ15N and C:N between March and June 2007 at Mon.
DOI: 10.6084/m9.figshare.3568143
title: Appendix F. Detailed change in the mycorrhizal colonization at Mon in 2008 in albinos and green plants.

description: Detailed change in the mycorrhizal colonization at Mon in 2008 in albinos and green plants.
DOI: 10.6084/m9.figshare.3568143.v1
title: Appendix F. Detailed change in the mycorrhizal colonization at Mon in 2008 in albinos and green plants.

description: Detailed change in the mycorrhizal colonization at Mon in 2008 in albinos and green plants.
DOI: 10.6084/m9.figshare.3568140
title: Appendix G. Herbivory damage and parasitic load of Cephalenthera damasonium individuals at Boi.

description: Herbivory damage and parasitic load of Cephalenthera damasonium individuals at Boi.
DOI: 10.6084/m9.figshare.3568140.v1
title: Appendix G. Herbivory damage and parasitic load of Cephalenthera damasonium individuals at Boi.

description: Herbivory damage and parasitic load of Cephalenthera damasonium individuals at Boi.
DOI: 10.6084/m9.figshare.3568137
title: Appendix H. Reproductive traits of albino and green individuals at Boi.

description: Reproductive traits of albino and green individuals at Boi.
DOI: 10.6084/m9.figshare.3568134
title: Appendix I. Relationship between fruit volume and whole seed mass for albinos and green individuals at Mon in 2009.

description: Relationship between fruit volume and whole seed mass for albinos and green individuals at Mon in 2009.
DOI: 10.6084/m9.figshare.3568137.v1
title: Appendix H. Reproductive traits of albino and green individuals at Boi.

description: Reproductive traits of albino and green individuals at Boi.
DOI: 10.6084/m9.figshare.3568131
title: Appendix A. Calculations of AICc weights (wi), indicating support for different models in various candidate sets.

description: Calculations of AICc weights (wi), indicating support for different models in various candidate sets.
DOI: 10.6084/m9.figshare.3568134.v1
title: Appendix I. Relationship between fruit volume and whole seed mass for albinos and green individuals at Mon in 2009.

description: Relationship between fruit volume and whole seed mass for albinos and green individuals at Mon in 2009.
DOI: 10.6084/m9.figshare.3568131.v1
title: Appendix A. Calculations of AICc weights (wi), indicating support for different models in various candidate sets.

description: Calculations of AICc weights (wi), indicating support for different models in various candidate sets.
DOI: 10.6084/m9.figshare.3568128
title: Appendix B. Calculations of weighted model averaged coefficients (and standard errors) relative to season of fire, understory type, initial height, and the interaction between fire season and understory type, using all models an Akaike weight ≥ 0.10.

description: Calculations of weighted model averaged coefficients (and standard errors) relative to season of fire, understory type, initial height, and the interaction between fire season and understory type, using all models an Akaike weight ≥ 0.10.
DOI: 10.6084/m9.figshare.3568128.v1
title: Appendix B. Calculations of weighted model averaged coefficients (and standard errors) relative to season of fire, understory type, initial height, and the interaction between fire season and understory type, using all models an Akaike weight ≥ 0.10.

description: Calculations of weighted model averaged coefficients (and standard errors) relative to season of fire, understory type, initial height, and the interaction between fire season and understory type, using all models an Akaike weight ≥ 0.10.
DOI: 10.6084/m9.figshare.3568125
title: Appendix A. A table of carbon pools for lodgepole pine stands of contrasting age and density in Yellowstone National Park.

description: A table of carbon pools for lodgepole pine stands of contrasting age and density in Yellowstone National Park.
DOI: 10.6084/m9.figshare.3568122
title: Appendix B. Description of methodology used to develop allometric equations for estimating lodgepole pine biomass.

description: Description of methodology used to develop allometric equations for estimating lodgepole pine biomass.
DOI: 10.6084/m9.figshare.3568122.v1
title: Appendix B. Description of methodology used to develop allometric equations for estimating lodgepole pine biomass.

description: Description of methodology used to develop allometric equations for estimating lodgepole pine biomass.
DOI: 10.6084/m9.figshare.3568119
title: Supplement 1. Data used for landscape-scale models.

description: File List Roland_data_file.txt (md5: da9177c696b793aae85d53cf264946fe)<br> Roland_table_description_info.csv (md5: b0ee20b99b209ff63b1c8af9bfd4780a) Description Roland_data_file.txt contains data used for landscape-scale models of tree occupancy and abundance including tree response variables and environmental covariates. Roland_table_description_info.csv contains descriptions of columns and rows in data file (above) used for landscape-scale models of tree occupancy and abundance including tree response variables and environmental covariates.
DOI: 10.6084/m9.figshare.3568119.v1
title: Supplement 1. Data used for landscape-scale models.

description: File List Roland_data_file.txt (md5: da9177c696b793aae85d53cf264946fe)<br> Roland_table_description_info.csv (md5: b0ee20b99b209ff63b1c8af9bfd4780a) Description Roland_data_file.txt contains data used for landscape-scale models of tree occupancy and abundance including tree response variables and environmental covariates. Roland_table_description_info.csv contains descriptions of columns and rows in data file (above) used for landscape-scale models of tree occupancy and abundance including tree response variables and environmental covariates.
DOI: 10.6084/m9.figshare.3568116
title: Appendix A. Qualitative modeling derivations.

description: Qualitative modeling derivations.
DOI: 10.6084/m9.figshare.3568116.v1
title: Appendix A. Qualitative modeling derivations.

description: Qualitative modeling derivations.
DOI: 10.6084/m9.figshare.3568113
title: Appendix B. Alternative model representations of the Macquarie Island system.

description: Alternative model representations of the Macquarie Island system.
DOI: 10.6084/m9.figshare.3568110
title: Appendix C. Bayes correctness test: additional results.

description: Bayes correctness test: additional results.
DOI: 10.6084/m9.figshare.3568113.v1
title: Appendix B. Alternative model representations of the Macquarie Island system.

description: Alternative model representations of the Macquarie Island system.
DOI: 10.6084/m9.figshare.3568110.v1
title: Appendix C. Bayes correctness test: additional results.

description: Bayes correctness test: additional results.
DOI: 10.6084/m9.figshare.3568107
title: Supplement 1. Example R code and models.

description: File List R files: simulation.r (md5: 282588866b80f0d3318a1446a3251665)<br> bayestest.r (md5: 61c4b9620541b11764e0f8b15885fbd6)<br> interface.r (md5: 7c8d3c8a1dea0653bb13e63898028f65)<br> mutual.r (md5: 36d845acc9de95c5d14ba9a85c04be5f)<br> tree.r (md5: 6c2fdcfa45bd39c90b400018bf928fb3)<br> distance.r (md5: 9fa284893caf861e4c8127b676305269)<br> community.r (md5: 9741154bc2029b4f5c22e93c86609a99)<br> dia.r (md5: 59bddece34b9577c83202b4a845e40e7)<br> tk.r (md5: de75b0f1e80a830d0eecd10a7e86515f) Dia model files: macquarie.dia (md5: 45d926fc48b1bf9a148dc71167bb87a3)<br> mesocosm1.dia (md5: 56f4b10b0ffd15714dc76221740dd2a7)<br> mesocosm2.dia (md5: c8cafd5b4fa2ff319515c995a73e769c)<br> fivevariable1.dia (md5: 77bfb61c147c45bbc6f5dc47aa1ed6c3)<br> fivevariable2.dia (md5: d39313ae9302b7fa7940e44e13734614)<br> fivevariable3.dia (md5: b0d04d241a7d4622a80043f12e982fb6)<br> fivevariable4.dia (md5: 36a4e77580957e9bdeee305af4855258)<br> fivevariable5.dia (md5: b6eb08d1f3cf294df3db469bf19afefa) Description Example R code for analyses presented in the main text is provided in simulation.r, bayestest.r, interface.r, mutual.r, tree.r, distance.r. Comments are provided at the beginning of each of these files describing the application of network analysis algorithms, and comments throughout annotate the steps involved. Dependencies are community.r, dia.r, and tk.r. These analyses require signed directed graphs created in Dia (available from http://live.gnome.org/Dia) as inputs. Example models provided as part of this supplement are macquarie.dia, mesocosm1.dia, mesocosm2.dia, and fivevariable1.dia–fivevariable5.dia.
DOI: 10.6084/m9.figshare.3568107.v1
title: Supplement 1. Example R code and models.

description: File List R files: simulation.r (md5: 282588866b80f0d3318a1446a3251665)<br> bayestest.r (md5: 61c4b9620541b11764e0f8b15885fbd6)<br> interface.r (md5: 7c8d3c8a1dea0653bb13e63898028f65)<br> mutual.r (md5: 36d845acc9de95c5d14ba9a85c04be5f)<br> tree.r (md5: 6c2fdcfa45bd39c90b400018bf928fb3)<br> distance.r (md5: 9fa284893caf861e4c8127b676305269)<br> community.r (md5: 9741154bc2029b4f5c22e93c86609a99)<br> dia.r (md5: 59bddece34b9577c83202b4a845e40e7)<br> tk.r (md5: de75b0f1e80a830d0eecd10a7e86515f) Dia model files: macquarie.dia (md5: 45d926fc48b1bf9a148dc71167bb87a3)<br> mesocosm1.dia (md5: 56f4b10b0ffd15714dc76221740dd2a7)<br> mesocosm2.dia (md5: c8cafd5b4fa2ff319515c995a73e769c)<br> fivevariable1.dia (md5: 77bfb61c147c45bbc6f5dc47aa1ed6c3)<br> fivevariable2.dia (md5: d39313ae9302b7fa7940e44e13734614)<br> fivevariable3.dia (md5: b0d04d241a7d4622a80043f12e982fb6)<br> fivevariable4.dia (md5: 36a4e77580957e9bdeee305af4855258)<br> fivevariable5.dia (md5: b6eb08d1f3cf294df3db469bf19afefa) Description Example R code for analyses presented in the main text is provided in simulation.r, bayestest.r, interface.r, mutual.r, tree.r, distance.r. Comments are provided at the beginning of each of these files describing the application of network analysis algorithms, and comments throughout annotate the steps involved. Dependencies are community.r, dia.r, and tk.r. These analyses require signed directed graphs created in Dia (available from http://live.gnome.org/Dia) as inputs. Example models provided as part of this supplement are macquarie.dia, mesocosm1.dia, mesocosm2.dia, and fivevariable1.dia–fivevariable5.dia.
DOI: 10.6084/m9.figshare.3568104
title: Appendix A. Additive genetic variance parameters, trait distributions, and selection.

description: Additive genetic variance parameters, trait distributions, and selection.
DOI: 10.6084/m9.figshare.3568104.v1
title: Appendix A. Additive genetic variance parameters, trait distributions, and selection.

description: Additive genetic variance parameters, trait distributions, and selection.
DOI: 10.6084/m9.figshare.3568101
title: Appendix B. Effect of evolution speed on equilibrium stability.

description: Effect of evolution speed on equilibrium stability.
DOI: 10.6084/m9.figshare.3568101.v1
title: Appendix B. Effect of evolution speed on equilibrium stability.

description: Effect of evolution speed on equilibrium stability.
DOI: 10.6084/m9.figshare.3568098
title: Appendix C. Equilibrium stability analysis of models without predator evolution.

description: Equilibrium stability analysis of models without predator evolution.
DOI: 10.6084/m9.figshare.3568098.v1
title: Appendix C. Equilibrium stability analysis of models without predator evolution.

description: Equilibrium stability analysis of models without predator evolution.
DOI: 10.6084/m9.figshare.3568095
title: Appendix D. Numerical method for finding interior equilibria of the models.

description: Numerical method for finding interior equilibria of the models.
DOI: 10.6084/m9.figshare.3568095.v1
title: Appendix D. Numerical method for finding interior equilibria of the models.

description: Numerical method for finding interior equilibria of the models.
DOI: 10.6084/m9.figshare.3568092
title: Appendix A. Evaluation of Type I error rates in tests for population regulation.

description: Evaluation of Type I error rates in tests for population regulation.
DOI: 10.6084/m9.figshare.3568092.v1
title: Appendix A. Evaluation of Type I error rates in tests for population regulation.

description: Evaluation of Type I error rates in tests for population regulation.
DOI: 10.6084/m9.figshare.3568089
title: Appendix B. Coefficients associated with tests of density dependence in mortality of bicolor damselfish in each of the four study populations.

description: Coefficients associated with tests of density dependence in mortality of bicolor damselfish in each of the four study populations.
DOI: 10.6084/m9.figshare.3568089.v1
title: Appendix B. Coefficients associated with tests of density dependence in mortality of bicolor damselfish in each of the four study populations.

description: Coefficients associated with tests of density dependence in mortality of bicolor damselfish in each of the four study populations.
DOI: 10.6084/m9.figshare.3568086
title: Appendix C. Coefficients associated with tests of density dependence in growth of bicolor damselfish in each of the four study populations.

description: Coefficients associated with tests of density dependence in growth of bicolor damselfish in each of the four study populations.
DOI: 10.6084/m9.figshare.3568086.v1
title: Appendix C. Coefficients associated with tests of density dependence in growth of bicolor damselfish in each of the four study populations.

description: Coefficients associated with tests of density dependence in growth of bicolor damselfish in each of the four study populations.
DOI: 10.6084/m9.figshare.3568083
title: Appendix A. Table of studies from a broad range of land uses and contexts that examine how different organic carbon sources affect denitrification rates.

description: Table of studies from a broad range of land uses and contexts that examine how different organic carbon sources affect denitrification rates.
DOI: 10.6084/m9.figshare.3568083.v1
title: Appendix A. Table of studies from a broad range of land uses and contexts that examine how different organic carbon sources affect denitrification rates.

description: Table of studies from a broad range of land uses and contexts that examine how different organic carbon sources affect denitrification rates.
DOI: 10.6084/m9.figshare.3568080
title: Appendix B. Aerial photographs of sampling locations at forested Pond Branch and Baisman Run, restored Minebank Run and Spring Branch, and unrestored urban Scotts Level Branch and Dead Run.

description: Aerial photographs of sampling locations at forested Pond Branch and Baisman Run, restored Minebank Run and Spring Branch, and unrestored urban Scotts Level Branch and Dead Run.
DOI: 10.6084/m9.figshare.3568080.v1
title: Appendix B. Aerial photographs of sampling locations at forested Pond Branch and Baisman Run, restored Minebank Run and Spring Branch, and unrestored urban Scotts Level Branch and Dead Run.

description: Aerial photographs of sampling locations at forested Pond Branch and Baisman Run, restored Minebank Run and Spring Branch, and unrestored urban Scotts Level Branch and Dead Run.
DOI: 10.6084/m9.figshare.3568077
title: Appendix A. Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects within each of the nine different hillslope categories on the creep-dominated and overland flow-dominated landscapes.

description: Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects within each of the nine different hillslope categories on the creep-dominated and overland flow-dominated landscapes.
DOI: 10.6084/m9.figshare.3568077.v1
title: Appendix A. Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects within each of the nine different hillslope categories on the creep-dominated and overland flow-dominated landscapes.

description: Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects within each of the nine different hillslope categories on the creep-dominated and overland flow-dominated landscapes.
DOI: 10.6084/m9.figshare.3568074
title: Appendix B. Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects averaged for the nine sample hillslopes (one of each hillslope type) depicted in Figs. 9–11 for the creep-dominated and overland flow-dominated landscapes.

description: Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects averaged for the nine sample hillslopes (one of each hillslope type) depicted in Figs. 9–11 for the creep-dominated and overland flow-dominated landscapes.
DOI: 10.6084/m9.figshare.3568074.v1
title: Appendix B. Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects averaged for the nine sample hillslopes (one of each hillslope type) depicted in Figs. 9–11 for the creep-dominated and overland flow-dominated landscapes.

description: Mean topographic index, contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects averaged for the nine sample hillslopes (one of each hillslope type) depicted in Figs. 9–11 for the creep-dominated and overland flow-dominated landscapes.
DOI: 10.6084/m9.figshare.3568071
title: Appendix C. Contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects for the nine sample hillslopes (one of each hillslope type) depicted in Figs. 8–10 for the creep-dominated and overland flow-dominated landscapes.

description: Contributing area, and slope as a function of distance from the channel for the channel-to-ridgeline, ascent, and descent transects for the nine sample hillslopes (one of each hillslope type) depicted in Figs. 8–10 for the creep-dominated and overland flow-dominated landscapes.