Changes
On September 15, 2021 at 11:48:21 AM UTC, Alexander Skeels:
-
Added resource Unnamed resource to Data from: Earth history events shaped the evolution of uneven biodiversity across tropical moist forests
f | 1 | { | f | 1 | { |
2 | "author": "[{\"affiliation\": \"Swiss Federal Research Institute for | 2 | "author": "[{\"affiliation\": \"Swiss Federal Research Institute for | ||
3 | Forest, Snow and Landscape (WSL)\", \"affiliation_02\": \"ETH | 3 | Forest, Snow and Landscape (WSL)\", \"affiliation_02\": \"ETH | ||
4 | Zurich\", \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | 4 | Zurich\", \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | ||
5 | \"validation\", \"curation\", \"software\", \"publication\"], | 5 | \"validation\", \"curation\", \"software\", \"publication\"], | ||
6 | \"email\": \"alexander.skeels@usys.ethz.ch\", \"given_name\": | 6 | \"email\": \"alexander.skeels@usys.ethz.ch\", \"given_name\": | ||
7 | \"Alexander\", \"identifier\": \"\", \"name\": \"Skeels\"}, | 7 | \"Alexander\", \"identifier\": \"\", \"name\": \"Skeels\"}, | ||
8 | {\"affiliation\": \"German Centre for Integrative Biodiversity | 8 | {\"affiliation\": \"German Centre for Integrative Biodiversity | ||
9 | Research Halle\\u2013Jena\\u2013Leipzig\", \"affiliation_02\": \"ETH | 9 | Research Halle\\u2013Jena\\u2013Leipzig\", \"affiliation_02\": \"ETH | ||
10 | Zurich\", \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | 10 | Zurich\", \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | ||
11 | \"validation\", \"curation\", \"software\", \"publication\"], | 11 | \"validation\", \"curation\", \"software\", \"publication\"], | ||
12 | \"email\": \"oskar@hagen.bio\", \"given_name\": \"Oskar\", | 12 | \"email\": \"oskar@hagen.bio\", \"given_name\": \"Oskar\", | ||
13 | \"identifier\": \"0000-0002-7931-6571\", \"name\": \"Hagen\"}, | 13 | \"identifier\": \"0000-0002-7931-6571\", \"name\": \"Hagen\"}, | ||
14 | {\"affiliation\": \"ETH Zurich\", \"affiliation_02\": \"Swiss Federal | 14 | {\"affiliation\": \"ETH Zurich\", \"affiliation_02\": \"Swiss Federal | ||
15 | Research Institute for Forest, Snow and Landscape (WSL)\", | 15 | Research Institute for Forest, Snow and Landscape (WSL)\", | ||
16 | \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | 16 | \"affiliation_03\": \"\", \"data_credit\": [\"collection\", | ||
17 | \"validation\", \"curation\", \"software\", \"publication\", | 17 | \"validation\", \"curation\", \"software\", \"publication\", | ||
18 | \"supervision\"], \"email\": \"loic.pellissier@usys.ethz.ch\", | 18 | \"supervision\"], \"email\": \"loic.pellissier@usys.ethz.ch\", | ||
19 | \"given_name\": \"Loic\", \"identifier\": \"\", \"name\": | 19 | \"given_name\": \"Loic\", \"identifier\": \"\", \"name\": | ||
20 | \"Pellissier\"}, {\"affiliation\": \"German Centre for Integrative | 20 | \"Pellissier\"}, {\"affiliation\": \"German Centre for Integrative | ||
21 | Biodiversity Research Halle\\u2013Jena\\u2013Leipzig\", | 21 | Biodiversity Research Halle\\u2013Jena\\u2013Leipzig\", | ||
22 | \"affiliation_02\": \"\", \"affiliation_03\": \"\", \"data_credit\": | 22 | \"affiliation_02\": \"\", \"affiliation_03\": \"\", \"data_credit\": | ||
23 | [\"collection\", \"publication\"], \"email\": | 23 | [\"collection\", \"publication\"], \"email\": | ||
24 | \"renske.onstein@idiv.de\", \"given_name\": \"Renske\", | 24 | \"renske.onstein@idiv.de\", \"given_name\": \"Renske\", | ||
25 | \"identifier\": \"0000-0002-2295-3510\", \"name\": \"Onstein\"}, | 25 | \"identifier\": \"0000-0002-2295-3510\", \"name\": \"Onstein\"}, | ||
26 | {\"affiliation\": \"Department of Ecology and Evolutionary Biology, | 26 | {\"affiliation\": \"Department of Ecology and Evolutionary Biology, | ||
27 | Yale University\", \"affiliation_02\": \"\", \"affiliation_03\": \"\", | 27 | Yale University\", \"affiliation_02\": \"\", \"affiliation_03\": \"\", | ||
28 | \"data_credit\": [\"collection\", \"validation\", \"publication\"], | 28 | \"data_credit\": [\"collection\", \"validation\", \"publication\"], | ||
29 | \"email\": \"walter.jetz@yale.edu\", \"given_name\": \"Walter\", | 29 | \"email\": \"walter.jetz@yale.edu\", \"given_name\": \"Walter\", | ||
30 | \"identifier\": \"0000-0002-1971-7277\", \"name\": \"Jetz\"}]", | 30 | \"identifier\": \"0000-0002-1971-7277\", \"name\": \"Jetz\"}]", | ||
31 | "author_email": null, | 31 | "author_email": null, | ||
32 | "creator_user_id": "93fd6aa4-4bae-4c26-9561-c54eb9142d42", | 32 | "creator_user_id": "93fd6aa4-4bae-4c26-9561-c54eb9142d42", | ||
33 | "date": "[{\"date\": \"2020-04-15\", \"date_type\": \"collected\", | 33 | "date": "[{\"date\": \"2020-04-15\", \"date_type\": \"collected\", | ||
34 | \"end_date\": \"2021-09-15\"}]", | 34 | \"end_date\": \"2021-09-15\"}]", | ||
35 | "doi": "", | 35 | "doi": "", | ||
36 | "funding": "[{\"grant_number\": \"310030-188550\", \"institution\": | 36 | "funding": "[{\"grant_number\": \"310030-188550\", \"institution\": | ||
37 | \"Schweizerischer Nationalfonds zur F\u00f6rderung der | 37 | \"Schweizerischer Nationalfonds zur F\u00f6rderung der | ||
38 | Wissenschaftlichen Forschung\", \"institution_url\": \"\"}]", | 38 | Wissenschaftlichen Forschung\", \"institution_url\": \"\"}]", | ||
39 | "groups": [], | 39 | "groups": [], | ||
40 | "id": "b7783edd-a5bc-4854-8e7d-1698afc875b9", | 40 | "id": "b7783edd-a5bc-4854-8e7d-1698afc875b9", | ||
41 | "isopen": false, | 41 | "isopen": false, | ||
42 | "language": "en", | 42 | "language": "en", | ||
43 | "license_id": "wsl-data", | 43 | "license_id": "wsl-data", | ||
44 | "license_title": "WSL Data Policy", | 44 | "license_title": "WSL Data Policy", | ||
45 | "license_url": | 45 | "license_url": | ||
46 | ps://www.wsl.ch/en/about-wsl/programmes-and-initiatives/envidat.html", | 46 | ps://www.wsl.ch/en/about-wsl/programmes-and-initiatives/envidat.html", | ||
47 | "maintainer": "{\"affiliation\": \"WSL / ETH\", \"email\": | 47 | "maintainer": "{\"affiliation\": \"WSL / ETH\", \"email\": | ||
48 | \"loic.pellissier@usys.ethz.ch\", \"given_name\": \"Loic\", | 48 | \"loic.pellissier@usys.ethz.ch\", \"given_name\": \"Loic\", | ||
49 | \"identifier\": \"\", \"name\": \"Pellissier\"}", | 49 | \"identifier\": \"\", \"name\": \"Pellissier\"}", | ||
50 | "maintainer_email": null, | 50 | "maintainer_email": null, | ||
51 | "metadata_created": "2021-09-15T11:44:16.660831", | 51 | "metadata_created": "2021-09-15T11:44:16.660831", | ||
n | 52 | "metadata_modified": "2021-09-15T11:46:18.853101", | n | 52 | "metadata_modified": "2021-09-15T11:48:21.646917", |
53 | "name": "data-from-hagen_etal_pnas", | 53 | "name": "data-from-hagen_etal_pnas", | ||
54 | "notes": "Datasets and R scripts | 54 | "notes": "Datasets and R scripts | ||
55 | \r\n\r\nDatasets\r\n\r\nDataset_S1.csv includes species diversity | 55 | \r\n\r\nDatasets\r\n\r\nDataset_S1.csv includes species diversity | ||
56 | counts for 237 clades in tropical moist forests (TMF) in the | 56 | counts for 237 clades in tropical moist forests (TMF) in the | ||
57 | Neotropics (NeotropicalTMF), Indomalaya (IndomalayanTMF), Afrotropics | 57 | Neotropics (NeotropicalTMF), Indomalaya (IndomalayanTMF), Afrotropics | ||
58 | (AfrotropicalTMF), All three TMF regions together (AllTMF), all | 58 | (AfrotropicalTMF), All three TMF regions together (AllTMF), all | ||
59 | non-TMF regions (NonTMF), and in total (Total). As well as whether the | 59 | non-TMF regions (NonTMF), and in total (Total). As well as whether the | ||
60 | clade is pantropical (Pantropical_clade) and shows the pantropical | 60 | clade is pantropical (Pantropical_clade) and shows the pantropical | ||
61 | diversity disparity (PDD_clade). \r\nDataset_S2.csv: environmental and | 61 | diversity disparity (PDD_clade). \r\nDataset_S2.csv: environmental and | ||
62 | species richness data. Longitude (x), latitude (y), potential | 62 | species richness data. Longitude (x), latitude (y), potential | ||
63 | evapotranspiration (PET), mean annual temperature (MAT), mean annual | 63 | evapotranspiration (PET), mean annual temperature (MAT), mean annual | ||
64 | precipitation), amphibian, bird, mammal, and reptile species richness, | 64 | precipitation), amphibian, bird, mammal, and reptile species richness, | ||
65 | PC1 and PC2 of environmental PCA and the region. Environmental data | 65 | PC1 and PC2 of environmental PCA and the region. Environmental data | ||
66 | (from CHELSA and ENVIREM) and species richness summarised from | 66 | (from CHELSA and ENVIREM) and species richness summarised from | ||
67 | published data (vertLife, MOL, IUCN, GARD).\r\nDataset_S3.csv: - | 67 | published data (vertLife, MOL, IUCN, GARD).\r\nDataset_S3.csv: - | ||
68 | Paleoenvironmental reconstructions (details in the associated SI | 68 | Paleoenvironmental reconstructions (details in the associated SI | ||
69 | appendix) including latitude (y), longitude (x), and temperature data | 69 | appendix) including latitude (y), longitude (x), and temperature data | ||
70 | across 200 myrs at 170 kyr intervals.\r\nDataset_S4.csv: simulation | 70 | across 200 myrs at 170 kyr intervals.\r\nDataset_S4.csv: simulation | ||
71 | model parameters and diversity summary statistics. Including rate of | 71 | model parameters and diversity summary statistics. Including rate of | ||
72 | temperature niche evolution (Tev), temperature niche width (TW), | 72 | temperature niche evolution (Tev), temperature niche width (TW), | ||
73 | divergence threshold (S), Dispersal probability distribution shape | 73 | divergence threshold (S), Dispersal probability distribution shape | ||
74 | (WeibullShape) and information on number of extinct species, number of | 74 | (WeibullShape) and information on number of extinct species, number of | ||
75 | extant species, total species, Spearman correlation coefficient | 75 | extant species, total species, Spearman correlation coefficient | ||
76 | between absolute latitude and species richness | 76 | between absolute latitude and species richness | ||
77 | (latitude_richness_cor), and diversity in the Neotropics, Indomalaya, | 77 | (latitude_richness_cor), and diversity in the Neotropics, Indomalaya, | ||
78 | Afrotropics. Also, whether the simulation generated pantropical | 78 | Afrotropics. Also, whether the simulation generated pantropical | ||
79 | distribution of species (pantropicality_index), or the pantropical | 79 | distribution of species (pantropicality_index), or the pantropical | ||
80 | diversity disparity (PDD_index). Finally what time step the simulation | 80 | diversity disparity (PDD_index). Finally what time step the simulation | ||
81 | exited at (0 for complete simulations).\r\nDataset_S5.csv: Net | 81 | exited at (0 for complete simulations).\r\nDataset_S5.csv: Net | ||
82 | relatedness index (NRI) in three tropical moist forest regions and | 82 | relatedness index (NRI) in three tropical moist forest regions and | ||
83 | associated p-values for pantropically distributed | 83 | associated p-values for pantropically distributed | ||
84 | taxa.\r\n\r\nScripts\r\nGen3sis_config_creator.R and | 84 | taxa.\r\n\r\nScripts\r\nGen3sis_config_creator.R and | ||
85 | Gen3sis_config_template.R scripts generate the configurations files to | 85 | Gen3sis_config_template.R scripts generate the configurations files to | ||
86 | run the simulation experiment.\r\nGLS.R R script to replicate the | 86 | run the simulation experiment.\r\nGLS.R R script to replicate the | ||
87 | linear modelling analyses.\r\n\r\n", | 87 | linear modelling analyses.\r\n\r\n", | ||
n | 88 | "num_resources": 1, | n | 88 | "num_resources": 2, |
89 | "num_tags": 5, | 89 | "num_tags": 5, | ||
90 | "organization": { | 90 | "organization": { | ||
91 | "approval_status": "approved", | 91 | "approval_status": "approved", | ||
92 | "created": "2018-12-01T11:42:44.590217", | 92 | "created": "2018-12-01T11:42:44.590217", | ||
93 | "description": "Our laboratory aims at understanding and | 93 | "description": "Our laboratory aims at understanding and | ||
94 | forecasting the response of biodiversity to landscape changes. We | 94 | forecasting the response of biodiversity to landscape changes. We | ||
95 | investigate the historical responses of species to past changes such | 95 | investigate the historical responses of species to past changes such | ||
96 | as plate tectonics or the glaciations of the Quaternary and | 96 | as plate tectonics or the glaciations of the Quaternary and | ||
97 | contemporary responses to ongoing global changes. We develop spatial | 97 | contemporary responses to ongoing global changes. We develop spatial | ||
98 | mechanistic models of biodiversity that account for processes such as | 98 | mechanistic models of biodiversity that account for processes such as | ||
99 | dispersal and biotic interactions.", | 99 | dispersal and biotic interactions.", | ||
100 | "id": "3b0fde83-e15c-4f8b-a451-9778f5309a84", | 100 | "id": "3b0fde83-e15c-4f8b-a451-9778f5309a84", | ||
101 | "image_url": | 101 | "image_url": | ||
102 | ww.ites.ethz.ch/_jcr_content/orgLogo.imageformat.logo.1518520524.jpg", | 102 | ww.ites.ethz.ch/_jcr_content/orgLogo.imageformat.logo.1518520524.jpg", | ||
103 | "is_organization": true, | 103 | "is_organization": true, | ||
104 | "name": "landscape-ecology", | 104 | "name": "landscape-ecology", | ||
105 | "state": "active", | 105 | "state": "active", | ||
106 | "title": "Landscape Ecology", | 106 | "title": "Landscape Ecology", | ||
107 | "type": "organization" | 107 | "type": "organization" | ||
108 | }, | 108 | }, | ||
109 | "owner_org": "3b0fde83-e15c-4f8b-a451-9778f5309a84", | 109 | "owner_org": "3b0fde83-e15c-4f8b-a451-9778f5309a84", | ||
110 | "private": false, | 110 | "private": false, | ||
111 | "publication": "{\"publication_year\": \"2021\", \"publisher\": | 111 | "publication": "{\"publication_year\": \"2021\", \"publisher\": | ||
112 | \"EnviDat\"}", | 112 | \"EnviDat\"}", | ||
113 | "publication_state": "", | 113 | "publication_state": "", | ||
114 | "related_datasets": "", | 114 | "related_datasets": "", | ||
115 | "related_publications": "", | 115 | "related_publications": "", | ||
116 | "relationships_as_object": [], | 116 | "relationships_as_object": [], | ||
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118 | "resource_type": "dataset", | 118 | "resource_type": "dataset", | ||
119 | "resource_type_general": "dataset", | 119 | "resource_type_general": "dataset", | ||
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124 | "created": "2021-09-15T11:45:27.749059", | 124 | "created": "2021-09-15T11:45:27.749059", | ||
125 | "description": "Gen3sis_config_creator.R and | 125 | "description": "Gen3sis_config_creator.R and | ||
126 | Gen3sis_config_template.R scripts generate the configurations files to | 126 | Gen3sis_config_template.R scripts generate the configurations files to | ||
127 | run the simulation experiment.", | 127 | run the simulation experiment.", | ||
128 | "doi": "", | 128 | "doi": "", | ||
129 | "format": "R", | 129 | "format": "R", | ||
130 | "hash": "", | 130 | "hash": "", | ||
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154 | "created": "2021-09-15T11:48:21.670609", | ||||
155 | "description": "Zip folder containing:\r\n\r\nDataset_S1.csv: | ||||
156 | includes species diversity counts for 237 clades in tropical moist | ||||
157 | forests (TMF) in the Neotropics (NeotropicalTMF), Indomalaya | ||||
158 | (IndomalayanTMF), Afrotropics (AfrotropicalTMF), All three TMF regions | ||||
159 | together (AllTMF), all non-TMF regions (NonTMF), and in total (Total). | ||||
160 | As well as whether the clade is pantropical (Pantropical_clade) and | ||||
161 | shows the pantropical diversity disparity (PDD_clade). | ||||
162 | \r\nDataset_S2.csv: environmental and species richness data. Longitude | ||||
163 | (x), latitude (y), potential evapotranspiration (PET), mean annual | ||||
164 | temperature (MAT), mean annual precipitation), amphibian, bird, | ||||
165 | mammal, and reptile species richness, PC1 and PC2 of environmental PCA | ||||
166 | and the region. Environmental data (from CHELSA and ENVIREM) and | ||||
167 | species richness summarised from published data (vertLife, MOL, IUCN, | ||||
168 | GARD).\r\nDataset_S3.csv: - Paleoenvironmental reconstructions | ||||
169 | (details in the associated SI appendix) including latitude (y), | ||||
170 | longitude (x), and temperature data across 200 myrs at 170 kyr | ||||
171 | intervals.\r\nDataset_S4.csv: simulation model parameters and | ||||
172 | diversity summary statistics. Including rate of temperature niche | ||||
173 | evolution (Tev), temperature niche width (TW), divergence threshold | ||||
174 | (S), Dispersal probability distribution shape (WeibullShape) and | ||||
175 | information on number of extinct species, number of extant species, | ||||
176 | total species, Spearman correlation coefficient between absolute | ||||
177 | latitude and species richness (latitude_richness_cor), and diversity | ||||
178 | in the Neotropics, Indomalaya, Afrotropics. Also, whether the | ||||
179 | simulation generated pantropical distribution of species | ||||
180 | (pantropicality_index), or the pantropical diversity disparity | ||||
181 | (PDD_index). Finally what time step the simulation exited at (0 for | ||||
182 | complete simulations).\r\nDataset_S5.csv: Net relatedness index (NRI) | ||||
183 | in three tropical moist forest regions and associated p-values for | ||||
184 | pantropically distributed taxa.\r\nGen3sis_config_creator.R and | ||||
185 | Gen3sis_config_template.R scripts generate the configurations files to | ||||
186 | run the simulation experiment.\r\nGLS.R R script to replicate the | ||||
187 | linear modelling analyses.\r\n", | ||||
188 | "doi": "", | ||||
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150 | } | 210 | } | ||
151 | ], | 211 | ], | ||
152 | "spatial": "{\"type\": \"Polygon\", \"coordinates\": [[[5.95587, | 212 | "spatial": "{\"type\": \"Polygon\", \"coordinates\": [[[5.95587, | ||
153 | 45.81802],[5.95587, 47.80838],[10.49203, 47.80838],[10.49203, | 213 | 45.81802],[5.95587, 47.80838],[10.49203, 47.80838],[10.49203, | ||
154 | 45.81802],[5.95587, 45.81802]]]}", | 214 | 45.81802],[5.95587, 45.81802]]]}", | ||
155 | "spatial_info": "Switzerland", | 215 | "spatial_info": "Switzerland", | ||
156 | "state": "draft", | 216 | "state": "draft", | ||
157 | "subtitle": "", | 217 | "subtitle": "", | ||
158 | "tags": [ | 218 | "tags": [ | ||
159 | { | 219 | { | ||
160 | "display_name": "GEN3SIS", | 220 | "display_name": "GEN3SIS", | ||
161 | "id": "7fd8733b-4feb-438b-a363-65cb5ce4b52a", | 221 | "id": "7fd8733b-4feb-438b-a363-65cb5ce4b52a", | ||
162 | "name": "GEN3SIS", | 222 | "name": "GEN3SIS", | ||
163 | "state": "active", | 223 | "state": "active", | ||
164 | "vocabulary_id": null | 224 | "vocabulary_id": null | ||
165 | }, | 225 | }, | ||
166 | { | 226 | { | ||
167 | "display_name": "MECHANISTIC MODELING", | 227 | "display_name": "MECHANISTIC MODELING", | ||
168 | "id": "64a80515-5864-4aee-9311-9fa9b13b8b5c", | 228 | "id": "64a80515-5864-4aee-9311-9fa9b13b8b5c", | ||
169 | "name": "MECHANISTIC MODELING", | 229 | "name": "MECHANISTIC MODELING", | ||
170 | "state": "active", | 230 | "state": "active", | ||
171 | "vocabulary_id": null | 231 | "vocabulary_id": null | ||
172 | }, | 232 | }, | ||
173 | { | 233 | { | ||
174 | "display_name": "PALEOCLIMATE", | 234 | "display_name": "PALEOCLIMATE", | ||
175 | "id": "5b2c5931-065b-49a9-89a4-b082eaf78e0e", | 235 | "id": "5b2c5931-065b-49a9-89a4-b082eaf78e0e", | ||
176 | "name": "PALEOCLIMATE", | 236 | "name": "PALEOCLIMATE", | ||
177 | "state": "active", | 237 | "state": "active", | ||
178 | "vocabulary_id": null | 238 | "vocabulary_id": null | ||
179 | }, | 239 | }, | ||
180 | { | 240 | { | ||
181 | "display_name": "PANTROPICAL DIVERSITY DISPARITY", | 241 | "display_name": "PANTROPICAL DIVERSITY DISPARITY", | ||
182 | "id": "c1a2995c-32b5-4bb6-9de7-e1f29e697791", | 242 | "id": "c1a2995c-32b5-4bb6-9de7-e1f29e697791", | ||
183 | "name": "PANTROPICAL DIVERSITY DISPARITY", | 243 | "name": "PANTROPICAL DIVERSITY DISPARITY", | ||
184 | "state": "active", | 244 | "state": "active", | ||
185 | "vocabulary_id": null | 245 | "vocabulary_id": null | ||
186 | }, | 246 | }, | ||
187 | { | 247 | { | ||
188 | "display_name": "PLATE TECTONICS", | 248 | "display_name": "PLATE TECTONICS", | ||
189 | "id": "747956ea-3953-4a5e-b63e-0eb7620dea9e", | 249 | "id": "747956ea-3953-4a5e-b63e-0eb7620dea9e", | ||
190 | "name": "PLATE TECTONICS", | 250 | "name": "PLATE TECTONICS", | ||
191 | "state": "active", | 251 | "state": "active", | ||
192 | "vocabulary_id": null | 252 | "vocabulary_id": null | ||
193 | } | 253 | } | ||
194 | ], | 254 | ], | ||
195 | "title": "Data from: Earth history events shaped the evolution of | 255 | "title": "Data from: Earth history events shaped the evolution of | ||
196 | uneven biodiversity across tropical moist forests", | 256 | uneven biodiversity across tropical moist forests", | ||
197 | "type": "dataset", | 257 | "type": "dataset", | ||
198 | "url": null, | 258 | "url": null, | ||
199 | "version": "1.0" | 259 | "version": "1.0" | ||
200 | } | 260 | } |