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Metadata: Biotope (macrofaunal assemblage) map and associated confidence layer based on grab and core data from 1976 to 2020
Abstract:
Two vector (.shp) files are provided. The first, (macro_assemblages.shp) shows the modelled (random forest) macrofaunal assemblage type based on a clustering of abundance data from the OneBenthic database (see `https://sway.office.com/HM5VkWvBoZ86atYP?ref=Link`_). The second file, (macroassemblagesconfidence.shp) shows associated confidence in the modelled output, with darker shades (high values) indicating higher confidence and lighter shades (lower values) indicating lower confidence. Both layers can be viewed in the OneBenthic Layers tool *( `https://rconnect.cefas.co.uk/onebenthiclayers/`)*, together with further details of the methodology used to produce them. .. _`https://sway.office.com/hm5vkwvboz86atyp?ref=link`: https://sway.office.com/HM5VkWvBoZ86atYP?ref=Link .. `https://rconnect.cefas.co.uk/onebenthiclayers/`: https://rconnect.cefas.co.uk/onebenthic_layers/
Data holder:
Centre for Environment, Fisheries and Aquaculture Science, Lowestoft Laboratory (CEFAS)
| Other details | ||
| Internal code | Internally assigned metadata identifier | 10685 |
| Title | The title is used to provide a brief and precise description of the dataset such as 'Date', 'Originating organisation/programme', 'Location' and 'Type of survey'. All acronyms and abbreviations should be reproduced in full. | Biotope (macrofaunal assemblage) map and associated confidence layer based on grab and core data from 1976 to 2020 |
| File Identifier | The File Identifier is a code, preferably a GUID, that is globally unique and remains with the same metadata record even if the record is edited or transferred between portals or tools. | CEFASc5111ddb-7772-4bd9-90dc-919dd9223989 |
| Resource Identifier | This is the code assigned by the data owner. | CEFAS21416 |
| Resource type | The resource type will likely be a dataset but could also be a series (collection of datasets with a common specification) or a service. | dataset |
| Start date | This describes the date the resource starts. This may only be the year if month and day are not known | 1976-11-16 |
| End date | This describes the date the resource ends. This may only be the year if month and day are not known | 2020-08-09 |
| Spatial resolution | This describes the spatial resolution of the dataset or the spatial limitations of the service. | 185 |
| Spatial resolution unit | This describes the unit of spatial resolution which for distance must be metres. | urn:ogc:def:uom:EPSG::9001 |
| Frequency of updates | This describes the frequency with which the resource is modified or updated i.e. a monitoring programme that samples once per year has a frequency that is described as 'annually'. | notPlanned |
| Abstract | The abstract provides a clear and brief statement of the content of the resource. | Two vector (.shp) files are provided. The first, (macro_assemblages.shp) shows the modelled (random forest) macrofaunal assemblage type based on a clustering of abundance data from the OneBenthic database (see `https://sway.office.com/HM5VkWvBoZ86atYP?ref=Link`_). The second file, (macroassemblagesconfidence.shp) shows associated confidence in the modelled output, with darker shades (high values) indicating higher confidence and lighter shades (lower values) indicating lower confidence. Both layers can be viewed in the OneBenthic Layers tool *( `https://rconnect.cefas.co.uk/onebenthiclayers/`)*, together with further details of the methodology used to produce them. .. _`https://sway.office.com/hm5vkwvboz86atyp?ref=link`: https://sway.office.com/HM5VkWvBoZ86atYP?ref=Link .. `https://rconnect.cefas.co.uk/onebenthiclayers/`: https://rconnect.cefas.co.uk/onebenthic_layers/ |
| Lineage | Lineage includes the background information, history of the sources of data, data quality statements and methods. | The modelled layer for macrofaunal assemblage is based on a random forest modelling of point sample data from the OneBenthic *(OB, `https://rconnect.cefas.co.uk/onebenthicdashboard`/)* dataset, largely following the methodology in Cooper et al. (2019), but with an expanded dataset covering the Greater North Sea and including data from the EurOBI (`https://www.eurobis.org/`_) data repository. Of the 44,407 samples within OB, we selected a subset of 31,845 for which data were considered comparable (i.e. sample acquired using a 0.1 m2 grab or core, processed using a 1 mm sieve and not taken from a known impacted site). Colonial taxa were included and given a value of one. To take account of potential differences in taxonomic resolution between surveys, macrofaunal data were aggregated to family level using the taxonomic hierarchy provided by the World Register of Marine Species (`https://www.marinespecies.org/`_). This reduced the number of taxa from 3,659 to 750. To address spatial autocorrelation in the data, and in keeping with the previous approach, samples closer than 50 m were removed from the dataset, reducing the overall number to 18,348. A fourth-root transformation was then applied to the data to down weight the influence of highly abundant taxa. Data were then subjected to clustering using k-means. A species distribution modelling approach, based on random forest, was then used to model cluster group (i.e. macrofaunal assemblage or biotope) identity across the study area (Greater North Sea). Cross-validation via repeated sub-sampling was done to evaluate the robustness of the model estimate and predictions to data sub-setting and to extract additional information from the model outputs to produce maps of confidence in the predicted distribution, following the approach described in Mitchell et al. (2018). The cross-validation was done on 10 split sample data sets with 75% used to train and 25% to test models, randomly sampled within the levels of the response variable to maintain the class balance. The final model output was plotted as the cluster class with the majority vote of all 10 model runs. An associated confidence map was produced by multiplying map layers for 1) the frequency of the most common class and ii) the average probability of the most common class. Model outputs are used in the OneBenthic Layers Tool ( `https://rconnect.cefas.co.uk/onebenthiclayers/)`. Cooper, K.M.; Bolam, S.G.; Downie, A.-L.; Barry, J. 2019. Biological-based habitat classification approaches promote cost-efficient monitoring: An example using seabed assemblages. J. Appl. Ecol. 56:1085–1098. `https://doi.org/10.1111/1365-2664.13381`_ Mitchell, P.J., Downie, A.-L., Diesing, M. How good is my map? 2018. A tool for semi-automated thematic mapping and spatially explicit confidence assessment. Env. Model. Softw. 108, 111–122. `https://doi.org/10.1016/j.envsoft.2018.07.014`_ .. `https://rconnect.cefas.co.uk/onebenthicdashboard`: https://rconnect.cefas.co.uk/onebenthic_dashboard .. _`https://www.eurobis.org/`: https://www.eurobis.org/ .. _`https://www.marinespecies.org/`: https://www.marinespecies.org/ .. `https://rconnect.cefas.co.uk/onebenthiclayers/)`: https://rconnect.cefas.co.uk/onebenthic_layers/) .. _`https://doi.org/10.1111/1365-2664.13381`: https://doi.org/10.1111/1365-2664.13381 .. _`https://doi.org/10.1016/j.envsoft.2018.07.014`: https://doi.org/10.1016/j.envsoft.2018.07.014 |
| Related keywords | ||
| Keyword | General subject area(s) associated with the resource, uses multiple controlled vocabularies | Benthos |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Biodiversity | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Invertebrate | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Model | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Biota abundance, biomass and diversity | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Habitat characterisation | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Species distribution | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Unknown | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | Marine Environmental Data and Information Network | |
| General subject area(s) associated with the resource, uses multiple controlled vocabularies | data.gov.uk | |
| Geographical coverage | ||
| North | The northern-most limit of the data resource in decimal degrees | 52.4595 |
| East | The eastern-most limit of the data resource in decimal degrees | 1.74086 |
| South | The southern-most limit of the data resource in decimal degrees | 52.4581 |
| West | The western-most limit of the data resource in decimal degrees | 1.73881 |
| Responsible organisations | ||
| Role | The point of contact is person or organisation with responsibility for the creation and maintenance of the metadata for the resource. | pointOfContact |
| Organisation name | Centre for Environment, Fisheries and Aquaculture Science, Lowestoft Laboratory (CEFAS) | |
| Delivery point | Cefas Lowestoft Laboratory, Pakefield Road | |
| Postal code | NR33 0HT | |
| City | Lowestoft | |
| Administrative area | Suffolk | |
| Country | UK | |
| data.manager@cefas.co.uk | ||
| Role | The originator is the person or organisation who created, collected or produced the resource. | originator |
| Organisation name | Centre for Environment, Fisheries and Aquaculture Science, Lowestoft Laboratory (CEFAS) | |
| Delivery point | Cefas Lowestoft Laboratory, Pakefield Road | |
| Postal code | NR33 0HT | |
| City | Lowestoft | |
| Administrative area | Suffolk | |
| Country | UK | |
| data.manager@cefas.co.uk | ||
| Role | The custodian is the person or organisation that accepts responsibility for the resource and ensures appropriate care and maintenance. If a dataset has been lodged with a Data Archive Centre for maintenance then this organisation is be entered here. | custodian |
| Organisation name | Centre for Environment, Fisheries and Aquaculture Science, Lowestoft Laboratory (CEFAS) | |
| Delivery point | Cefas Lowestoft Laboratory, Pakefield Road | |
| Postal code | NR33 0HT | |
| City | Lowestoft | |
| Administrative area | Suffolk | |
| Country | UK | |
| data.manager@cefas.co.uk | ||
| Role | The distributor is the person or organisation that distributes the resource. | distributor |
| Organisation name | Centre for Environment, Fisheries and Aquaculture Science, Lowestoft Laboratory (CEFAS) | |
| Delivery point | Cefas Lowestoft Laboratory, Pakefield Road | |
| Postal code | NR33 0HT | |
| City | Lowestoft | |
| Administrative area | Suffolk | |
| Country | UK | |
| data.manager@cefas.co.uk | ||
| Role | The owner is the person or organisation that owns the resource. | owner |
| Organisation name | Centre for Environment, Fisheries and Aquaculture Science, Lowestoft Laboratory (CEFAS) | |
| data.manager@cefas.co.uk | ||
| Resource locators | ||
| Locator URL | Web address (URL) that links to the resource | https://data.cefas.co.uk/view/21416 |
| Locator name | Name of the web resource | Cefas Data Portal |
| Dataset constraints | ||
| 20.1 Limitations on Public Access - Access constraints | This states `otherRestrictions` from ISO vocabulary RestrictionCode and is an INSPIRE/GEMINI requirement. | otherRestrictions |
| 20.2 Limitations on Public Access - Other constraints | noLimitations | |
| 21.1 Conditions for Access and Use - Use constraints | This states `otherRestrictions` from ISO vocabulary RestrictionCode and is an INSPIRE/GEMINI requirement. | otherRestrictions |
| 21.2 Conditions for Access and Use - Other constraints | https://www.nationalarchives.gov.uk/doc/open-government-licence/version/3/ | |
| Version info | ||
| Date of publication | The publication date of the resource or if previously unpublished the date that the resource was made publicly available via the MEDIN network. | 2022-02-11 |
| Date of last revision | The most recent date that the resource was revised. | 2025-09-24 |
| Date of creation | The date that the resource was created. | 2022-02-11 |
| Harvest date | The date which this record has been (re)harvested from the provider. | 2026-04-19 |
| Metadata date | The date when the content of this metadata record was last updated. | 2025-09-24 |
| Metadata standard name | The name of the metadata standard used to create this metadata | MEDIN |
| Metadata standard version | The version of the MEDIN Discovery Metadata Standard used to create the metadata record | 3.1.1 |