Inferring, comparing and exploring ecological networks from time-series data through R packages constructnet, disgraph and dynet Article Swipe
Anshuman Swain
,
Travis Byrum
,
Zhaoyi Zhuang
,
Luke A. Perry
,
Michael Y. Lin
,
William F. Fagan
·
YOU?
·
· 2021
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.2103.15572
YOU?
·
· 2021
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.2103.15572
Network inference is a major field of interest for the ecological community, especially in light of the high cost and difficulty of manual observation, and easy availability of remote, long term monitoring data. In addition, comparing across similar network structures, especially with spatial, environmental, or temporal variability and, simulating processes on networks to create toy models and hypotheses - are topics of considerable interest to the researchers. A large number of methods are being developed in the network science community to achieve these objectives but either don't have their code available or an implementation in R, the language preferred by ecologists and other biologists. We provide a suite of three packages which will provide a central suite of standardized network inference methods from time-series data (constructnet), distance metrics (disgraph) and (process) simulation models (dynet) to the growing R network analysis environment and would help ecologists and biologists to perform and compare methods under one roof. These packages are implemented in a coherent, consistent framework - making comparisons across methods and metrics easier. We hope that these tools in R will help increase the accessibility of network tools to ecologists and other biologists, who the language for most of their analysis.
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- Type
- preprint
- Language
- en
- Landing Page
- http://arxiv.org/abs/2103.15572
- https://arxiv.org/pdf/2103.15572
- OA Status
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- Cited By
- 1
- References
- 38
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- OpenAlex ID
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https://openalex.org/W3146061895Canonical identifier for this work in OpenAlex
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https://doi.org/10.48550/arxiv.2103.15572Digital Object Identifier
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Inferring, comparing and exploring ecological networks from time-series data through R packages constructnet, disgraph and dynetWork title
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preprintOpenAlex work type
- Language
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enPrimary language
- Publication year
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2021Year of publication
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2021-03-29Full publication date if available
- Authors
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Anshuman Swain, Travis Byrum, Zhaoyi Zhuang, Luke A. Perry, Michael Y. Lin, William F. FaganList of authors in order
- Landing page
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https://arxiv.org/abs/2103.15572Publisher landing page
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greenOpen access status per OpenAlex
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Suite, Computer science, Inference, Data science, Field (mathematics), Code (set theory), Process (computing), Data mining, Ecology, Artificial intelligence, Geography, Programming language, Archaeology, Pure mathematics, Mathematics, Set (abstract data type), BiologyTop concepts (fields/topics) attached by OpenAlex
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1Total citation count in OpenAlex
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20Other works algorithmically related by OpenAlex
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| abstract_inverted_index.is | 2 |
| abstract_inverted_index.of | 6, 15, 21, 27, 61, 70, 108, 117, 184, 197 |
| abstract_inverted_index.on | 50 |
| abstract_inverted_index.or | 44, 91 |
| abstract_inverted_index.to | 52, 64, 80, 134, 147, 187 |
| abstract_inverted_index.and | 19, 24, 56, 101, 129, 141, 145, 149, 169, 189 |
| abstract_inverted_index.are | 59, 72, 157 |
| abstract_inverted_index.but | 84 |
| abstract_inverted_index.for | 8, 195 |
| abstract_inverted_index.one | 153 |
| abstract_inverted_index.the | 9, 16, 65, 76, 96, 135, 182, 193 |
| abstract_inverted_index.toy | 54 |
| abstract_inverted_index.who | 192 |
| abstract_inverted_index.and, | 47 |
| abstract_inverted_index.code | 89 |
| abstract_inverted_index.cost | 18 |
| abstract_inverted_index.data | 124 |
| abstract_inverted_index.easy | 25 |
| abstract_inverted_index.from | 122 |
| abstract_inverted_index.have | 87 |
| abstract_inverted_index.help | 143, 180 |
| abstract_inverted_index.high | 17 |
| abstract_inverted_index.hope | 173 |
| abstract_inverted_index.long | 29 |
| abstract_inverted_index.most | 196 |
| abstract_inverted_index.term | 30 |
| abstract_inverted_index.that | 174 |
| abstract_inverted_index.will | 112, 179 |
| abstract_inverted_index.with | 41 |
| abstract_inverted_index.These | 155 |
| abstract_inverted_index.being | 73 |
| abstract_inverted_index.data. | 32 |
| abstract_inverted_index.don't | 86 |
| abstract_inverted_index.field | 5 |
| abstract_inverted_index.large | 68 |
| abstract_inverted_index.light | 14 |
| abstract_inverted_index.major | 4 |
| abstract_inverted_index.other | 102, 190 |
| abstract_inverted_index.roof. | 154 |
| abstract_inverted_index.suite | 107, 116 |
| abstract_inverted_index.their | 88, 198 |
| abstract_inverted_index.these | 82, 175 |
| abstract_inverted_index.three | 109 |
| abstract_inverted_index.tools | 176, 186 |
| abstract_inverted_index.under | 152 |
| abstract_inverted_index.which | 111 |
| abstract_inverted_index.would | 142 |
| abstract_inverted_index.across | 36, 167 |
| abstract_inverted_index.create | 53 |
| abstract_inverted_index.either | 85 |
| abstract_inverted_index.making | 165 |
| abstract_inverted_index.manual | 22 |
| abstract_inverted_index.models | 55, 132 |
| abstract_inverted_index.number | 69 |
| abstract_inverted_index.topics | 60 |
| abstract_inverted_index.(dynet) | 133 |
| abstract_inverted_index.Network | 0 |
| abstract_inverted_index.achieve | 81 |
| abstract_inverted_index.central | 115 |
| abstract_inverted_index.compare | 150 |
| abstract_inverted_index.easier. | 171 |
| abstract_inverted_index.growing | 136 |
| abstract_inverted_index.methods | 71, 121, 151, 168 |
| abstract_inverted_index.metrics | 127, 170 |
| abstract_inverted_index.network | 38, 77, 119, 138, 185 |
| abstract_inverted_index.perform | 148 |
| abstract_inverted_index.provide | 105, 113 |
| abstract_inverted_index.remote, | 28 |
| abstract_inverted_index.science | 78 |
| abstract_inverted_index.similar | 37 |
| abstract_inverted_index.analysis | 139 |
| abstract_inverted_index.distance | 126 |
| abstract_inverted_index.increase | 181 |
| abstract_inverted_index.interest | 7, 63 |
| abstract_inverted_index.language | 97, 194 |
| abstract_inverted_index.networks | 51 |
| abstract_inverted_index.packages | 110, 156 |
| abstract_inverted_index.spatial, | 42 |
| abstract_inverted_index.temporal | 45 |
| abstract_inverted_index.(process) | 130 |
| abstract_inverted_index.addition, | 34 |
| abstract_inverted_index.analysis. | 199 |
| abstract_inverted_index.available | 90 |
| abstract_inverted_index.coherent, | 161 |
| abstract_inverted_index.community | 79 |
| abstract_inverted_index.comparing | 35 |
| abstract_inverted_index.developed | 74 |
| abstract_inverted_index.framework | 163 |
| abstract_inverted_index.inference | 1, 120 |
| abstract_inverted_index.preferred | 98 |
| abstract_inverted_index.processes | 49 |
| abstract_inverted_index.(disgraph) | 128 |
| abstract_inverted_index.biologists | 146 |
| abstract_inverted_index.community, | 11 |
| abstract_inverted_index.consistent | 162 |
| abstract_inverted_index.difficulty | 20 |
| abstract_inverted_index.ecological | 10 |
| abstract_inverted_index.ecologists | 100, 144, 188 |
| abstract_inverted_index.especially | 12, 40 |
| abstract_inverted_index.hypotheses | 57 |
| abstract_inverted_index.monitoring | 31 |
| abstract_inverted_index.objectives | 83 |
| abstract_inverted_index.simulating | 48 |
| abstract_inverted_index.simulation | 131 |
| abstract_inverted_index.biologists, | 191 |
| abstract_inverted_index.biologists. | 103 |
| abstract_inverted_index.comparisons | 166 |
| abstract_inverted_index.environment | 140 |
| abstract_inverted_index.implemented | 158 |
| abstract_inverted_index.structures, | 39 |
| abstract_inverted_index.time-series | 123 |
| abstract_inverted_index.variability | 46 |
| abstract_inverted_index.availability | 26 |
| abstract_inverted_index.considerable | 62 |
| abstract_inverted_index.observation, | 23 |
| abstract_inverted_index.researchers. | 66 |
| abstract_inverted_index.standardized | 118 |
| abstract_inverted_index.accessibility | 183 |
| abstract_inverted_index.environmental, | 43 |
| abstract_inverted_index.implementation | 93 |
| abstract_inverted_index.(constructnet), | 125 |
| cited_by_percentile_year | |
| countries_distinct_count | 0 |
| institutions_distinct_count | 6 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/15 |
| sustainable_development_goals[0].score | 0.5899999737739563 |
| sustainable_development_goals[0].display_name | Life in Land |
| citation_normalized_percentile |