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Dataset Title:  Fish count data from the Caroline Islands and the Federal States of Micronesia
collected from 2012-2014.
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Institution:  BCO-DMO   (Dataset ID: bcodmo_dataset_684177)
Information:  Summary ? | License ? | ISO 19115 | Metadata | Background (external link) | Files | Make a graph
 
Variable ?   Optional
Constraint #1 ?
Optional
Constraint #2 ?
   Minimum ?
 
   Maximum ?
 
 species (unitless) ?              
 site (unitless) ?              
 date (unitless) ?              
 time2 (Time, unitless) ?              
 transect (unitless) ?              
 transect_width (meters) ?              
 type (unitless) ?              
 morph (unitless) ?              
 phase (unitless) ?              
 size (mm) ?          7    2000
 count (count) ?          1    700
 
Server-side Functions ?
 distinct() ?
? (" ")

File type: (more info)

(Documentation / Bypass this form ? )
 
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The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  species {
    String description "Species of fish counted";
    String ioos_category "Taxonomy";
    String long_name "Species";
    String units "unitless";
  }
  site {
    String description "Site of sampling";
    String ioos_category "Unknown";
    String long_name "Site";
    String units "unitless";
  }
  date {
    String description "Date of sampling; YYYY/MM/DD";
    String ioos_category "Time";
    String long_name "Date";
    String units "unitless";
  }
  time2 {
    String description "Time of sampling; In some cases, the time is formatted as HH:MM, and in other cases it is just indicated if sampling occurred in the morning or the afternoon (AM or PM).";
    String ioos_category "Time";
    String long_name "Time";
    String units "unitless";
  }
  transect {
    String description "Transect swam";
    String ioos_category "Unknown";
    String long_name "Transect";
    String units "unitless";
  }
  transect_width {
    String description "Width of transect swam";
    String ioos_category "Unknown";
    String long_name "Transect Width";
    String units "meters";
  }
  type {
    String description 
"Trophic level of fish; 1. herbivores 2. planktivores 3. corallivores 4. carnivores and 5. piscivores. Species that have a wider trophic range (omnivores)
were categorized by their main";
    String ioos_category "Unknown";
    String long_name "Type";
    String units "unitless";
  }
  morph {
    String description "Morphology of fish; color and appearance";
    String ioos_category "Unknown";
    String long_name "Morph";
    String units "unitless";
  }
  phase {
    String description "Phase of fish counted";
    String ioos_category "Unknown";
    String long_name "Phase";
    String units "unitless";
  }
  size {
    Int16 _FillValue 32767;
    Int16 actual_range 7, 2000;
    String description "Size category of fish observed";
    String ioos_category "Unknown";
    String long_name "Size";
    String units "mm";
  }
  count {
    Int16 _FillValue 32767;
    Int16 actual_range 1, 700;
    Float64 colorBarMaximum 100.0;
    Float64 colorBarMinimum 0.0;
    String description "Count of species in particular size class";
    String ioos_category "Statistics";
    String long_name "Count";
    String units "count";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
    String acquisition_description 
"Surveys were conducted using snorkel on the reef crest and the reef table, in
shallow sites at depths between 1.5 and 3 meters.
 
Fish community characterization
 
All fish were identified to the species level and counted along 50 m
transects, in the same habitat and area as the quadrats, parallel to the reef
crest and in 1.5-5 m in depth. The transect count area extended from the sea
floor to the surface of the water column and consisted of at least two 50 m
long swaths surveyed sequentially at each site. For all transects in all
years, the same diver Hirst counted mobile fish on a 5 m wide swath, before
returning along the same transect and counting cryptic benthic fishes on a 1 m
wide swath. The total lengths of all fishes were estimated to the nearest cm.
For analysis of fish community structure, fish species were
classified\\u00a0into one of Hive trophic guilds: 1. herbivores, 2.
planktivores, 3. corallivores, 4. carnivores, and 5. piscivores. Species that
have a wider trophic range (omnivores) were categorized by their main food
preference according to the 5 categories mentioned above. Biomass was
estimated using the published length/weight relationships most appropriate for
the region (Adam et al., 2011; Froese & Pauly, 2000; Kulbicki et al., 2005).
Sharks and large rays were occasionally seen on transects, but their overall
low abundance makes band transects a poor approach to estimate their actual
numbers and contribution to biomass. Therefore elasmobranchs were recorded,
but not included in our calculations here.";
    String awards_0_award_nid "658966";
    String awards_0_award_number "OCE-1546374";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward?AWD_ID=1546374";
    String awards_0_funder_name "NSF Division of Ocean Sciences";
    String awards_0_funding_acronym "NSF OCE";
    String awards_0_funding_source_nid "355";
    String awards_0_program_manager "Dr Michael E. Sieracki";
    String awards_0_program_manager_nid "50446";
    String cdm_data_type "Other";
    String comment 
"Fish data 
  G. Bernardi & N. Crane, PIs 
  Version 9 March 2017";
    String Conventions "COARDS, CF-1.6, ACDD-1.3";
    String creator_email "info@bco-dmo.org";
    String creator_name "BCO-DMO";
    String creator_type "institution";
    String creator_url "https://www.bco-dmo.org/";
    String data_source "extract_data_as_tsv version 2.2d  13 Jun 2019";
    String date_created "2017-03-11T01:38:30Z";
    String date_modified "2019-04-04T15:02:59Z";
    String defaultDataQuery "&time";
    String doi "10.1575/1912/bco-dmo.684177.1";
    String history 
"2019-11-17T03:18:19Z (local files)
2019-11-17T03:18:19Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_684177.html";
    String infoUrl "https://www.bco-dmo.org/dataset/684177";
    String institution "BCO-DMO";
    String instruments_0_acronym "camera";
    String instruments_0_dataset_instrument_description "Used to capture quadrats";
    String instruments_0_dataset_instrument_nid "684185";
    String instruments_0_description "All types of photographic equipment including stills, video, film and digital systems.";
    String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/311/";
    String instruments_0_instrument_name "Camera";
    String instruments_0_instrument_nid "520";
    String instruments_0_supplied_name "Camera";
    String keywords "bco, bco-dmo, biological, chemical, count, data, dataset, date, dmo, erddap, management, morph, oceanography, office, phase, preliminary, site, size, species, statistics, taxonomy, time, time2, transect, transect_width, type, width";
    String license 
"The data may be used and redistributed for free but is not intended
for legal use, since it may contain inaccuracies. Neither the data
Contributor, ERD, NOAA, nor the United States Government, nor any
of their employees or contractors, makes any warranty, express or
implied, including warranties of merchantability and fitness for a
particular purpose, or assumes any legal liability for the accuracy,
completeness, or usefulness, of this information.";
    String metadata_source "https://www.bco-dmo.org/api/dataset/684177";
    String param_mapping "{'684177': {}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/684177/parameters";
    String people_0_affiliation "University of California-Santa Cruz";
    String people_0_affiliation_acronym "UC Santa Cruz";
    String people_0_person_name "Giacomo Bernardi";
    String people_0_person_nid "658968";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "Cabrillo College";
    String people_1_person_name "Nicole Crane";
    String people_1_person_nid "658964";
    String people_1_role "Co-Principal Investigator";
    String people_1_role_type "originator";
    String people_2_affiliation "Cabrillo College";
    String people_2_person_name "Nicole Crane";
    String people_2_person_nid "658964";
    String people_2_role "Contact";
    String people_2_role_type "related";
    String people_3_affiliation "Woods Hole Oceanographic Institution";
    String people_3_affiliation_acronym "WHOI BCO-DMO";
    String people_3_person_name "Hannah Ake";
    String people_3_person_nid "650173";
    String people_3_role "BCO-DMO Data Manager";
    String people_3_role_type "related";
    String project "The impact of a large episodic disturbance on an invasive (outbreak) coral: Will Typhoon Maysak promote or suppress an invasive Montipora sp. Coral on reefs of Ulithi Atoll, Federated States of Micronesia?";
    String projects_0_acronym "DisturbImpactsCoral";
    String projects_0_description 
"Extracted from the NSF award abstract:
Ulithi Atoll, in the Federated States of Micronesia, is the fourth largest Atoll in the world, and was an important staging area for the US Navy 3rd fleet during WWII. The Atoll contains dynamic coral reefs, and communities of people that depend on them. Ulithi has been subjected to a number of human and natural disturbances, including Typhoon Ophelia that hit in 1960. Local fishermen believe that this event started an invasion process by a 'weedy' invasive coral that covers reefs, and removes essential habitat for fish and octopus, potentially threatening these ecosystems. Four years ago, local people invited the investigators to Ulithi to study the reefs and work together to enhance fisheries and reef health. The investigators sequenced the invading coral DNA and identified it as a new species of Montipora. However, its invasion dynamics remain a mystery. In early April 2015, Ulithi was hit again by a major disturbance: super Typhoon Maysak. The Typhoon destroyed most structures on the island, and removed much of the coral formations visible from shore. Using their baseline data of the past four years, the investigators, along with a team of students, seek to map the effect of the Typhoon on the invasive Montipora. Using genomic sequencing, they hope to better understand the role of Typhoon Maysak on the establishment and dispersal of this invasive coral. This project provides a unique opportunity to study the effects of a rare event, and invasion processes, and to broadly disseminate findings, raising awareness about coral reefs, climate change, and unique human-natural coupled systems.�
Super typhoon Maysak struck Ulithi Atoll on March 31, 2015, where an invasive/outbreak species of Montipora has affected shallow coral reefs over at least the last 50 years. The research the investigators propose will elucidate the effects of this rare but high impact event on a biological invasion using genomics and reef sampling to investigate Micronesian reefs that were dominated by Montipora before the typhoon, and more 'pristine' reefs where Montipora was absent or in low densities. The investigators will be relating these findings to existing data that were collected from these sites over the past four years. These studies will advance our understanding of biological invasions in coral reef systems, explore the unusual occurrence of a coral species as an outbreak organism, and contribute to our knowledge of how high impact, episodic disturbances - likely to increase in frequency with the advance of global climate change - may affect threated coral reef ecosystems world-wide.";
    String projects_0_end_date "2017-07";
    String projects_0_geolocation "Ulithi Atoll, Yap State, Federated States of Micronesia.  Western Pacific Ocean, Caroline Islands";
    String projects_0_name "The impact of a large episodic disturbance on an invasive (outbreak) coral: Will Typhoon Maysak promote or suppress an invasive Montipora sp. Coral on reefs of Ulithi Atoll, Federated States of Micronesia?";
    String projects_0_project_nid "658965";
    String projects_0_project_website "http://onepeopleonereef.ucsc.edu";
    String projects_0_start_date "2015-08";
    String publisher_name "Hannah Ake";
    String publisher_role "BCO-DMO Data Manager(s)";
    String sourceUrl "(local files)";
    String standard_name_vocabulary "CF Standard Name Table v29";
    String summary "Fish count data from the Caroline Islands and the Federal States of Micronesia collected from 2012-2014.";
    String title "Fish count data from the Caroline Islands and the Federal States of Micronesia collected from 2012-2014.";
    String version "1";
    String xml_source "osprey2erddap.update_xml() v1.5-beta";
  }
}

 

Using tabledap to Request Data and Graphs from Tabular Datasets

tabledap lets you request a data subset, a graph, or a map from a tabular dataset (for example, buoy data), via a specially formed URL. tabledap uses the OPeNDAP (external link) Data Access Protocol (DAP) (external link) and its selection constraints (external link).

The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.

Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names, followed by a collection of constraints (e.g., variable<value), each preceded by '&' (which is interpreted as "AND").

For details, see the tabledap Documentation.


 
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