ERDDAP > tabledap > Data Access Form

Dataset Title:	[Metagenome and metatranscriptome sequences from deep-sea hydrothermal vent microbial communities] - Metagenome and metatranscriptome sequences from deep- sea hydrothermal vent microbial communities collected on cruises AT42-22, TN405, and NA108 from May 2019 to Jun 2022 (Collaborative Research: Microbes need frenemies: unveiling microbial relationships with protists and viruses that support deep-sea hydrothermal vent food webs)
Institution:	BCO-DMO   (Dataset ID: bcodmo_dataset_936069_v1)
Information:	Summary | License | FGDC | ISO 19115 | Metadata | Background | Files | Make a graph

 

Variable	Optional Constraint #1		Optional Constraint #2		Minimum	Maximum
SAMPLE_ID (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"AXIAL_103_Axial202..."	"MCR_METAG_128_Shri..."
SHORT_SAMPLE_ID (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"1235"	"Vent105"
SAMPLE_NAME (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"ASHES plume"	"in transit sample,..."
LAB_NUM (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"103"	"80"
CRUISE_ID (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"AT42-22"	"TN405"
FIELD_REGION (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"AXIAL"	"MCR"
YEAR (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"2013"	"2022"
FIELD_YEAR (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Axial2013"	"VonDamm2020"
VENT (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"ASHESplume"	"X18"
latitude (degrees_north)	!= =~ <= >= = < >		!= =~ <= >= = < >		18.3742	46.27389
longitude (degrees_east)	!= =~ <= >= = < >		!= =~ <= >= = < >		-130.0137	-81.3779
ORIGIN_TYPE (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Tf"	"insitu"
ORIGIN_DESCRIPTION (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Niskin 1"	"lab experiment"
FRENEMIES_PROJ (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Frenemies_MCR_meta..."	"Frenemies_VARIOUS_..."
LIBRARY (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"METAGENOME"	"METATRANSCRIPTOME"
RUN (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"SRR26701687"	"SRR26701742"
BIOSAMPLE (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"SAMN15341577"	"SAMN38035011"
BASES (Giga base pairs (Gb))	!= =~ <= >= = < >		!= =~ <= >= = < >		1.61	64.38
BYTES (Gigabytes)	!= =~ <= >= = < >		!= =~ <= >= = < >		0.53	20.5
EXPERIMENT (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"SRX22401323"	"SRX22401378"
LIBRARY_NAME (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"AXIAL_103_Axial202..."	"MCR_METAG_128_Shri..."
LIBRARY_SELECTION (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"RANDOM PCR"	"RT-PCR"
geo_loc_name_country (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Cayman Islands"	"uncalculated"
geo_loc_name_country_continent (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"North America"	"uncalculated"
geo_loc_name (unitless)	!= =~ <= >= = < >		!= =~ <= >= = < >		"Cayman Islands: 12..."	"USA: Pacific Ocean"

 

Server-side Functions

distinct()

orderBy orderByDescending orderByClosest orderByCount orderByLimit orderByMax orderByMin orderByMinMax orderByMean orderBySum (" SAMPLE_ID SHORT_SAMPLE_ID SAMPLE_NAME LAB_NUM CRUISE_ID FIELD_REGION YEAR FIELD_YEAR VENT latitude longitude ORIGIN_TYPE ORIGIN_DESCRIPTION FRENEMIES_PROJ LIBRARY RUN BIOSAMPLE BASES BYTES EXPERIMENT LIBRARY_NAME LIBRARY_SELECTION geo_loc_name_country geo_loc_name_country_continent geo_loc_name SAMPLE_ID SHORT_SAMPLE_ID SAMPLE_NAME LAB_NUM CRUISE_ID FIELD_REGION YEAR FIELD_YEAR VENT latitude longitude ORIGIN_TYPE ORIGIN_DESCRIPTION FRENEMIES_PROJ LIBRARY RUN BIOSAMPLE BASES BYTES EXPERIMENT LIBRARY_NAME LIBRARY_SELECTION geo_loc_name_country geo_loc_name_country_continent geo_loc_name SAMPLE_ID SHORT_SAMPLE_ID SAMPLE_NAME LAB_NUM CRUISE_ID FIELD_REGION YEAR FIELD_YEAR VENT latitude longitude ORIGIN_TYPE ORIGIN_DESCRIPTION FRENEMIES_PROJ LIBRARY RUN BIOSAMPLE BASES BYTES EXPERIMENT LIBRARY_NAME LIBRARY_SELECTION geo_loc_name_country geo_loc_name_country_continent geo_loc_name SAMPLE_ID SHORT_SAMPLE_ID SAMPLE_NAME LAB_NUM CRUISE_ID FIELD_REGION YEAR FIELD_YEAR VENT latitude longitude ORIGIN_TYPE ORIGIN_DESCRIPTION FRENEMIES_PROJ LIBRARY RUN BIOSAMPLE BASES BYTES EXPERIMENT LIBRARY_NAME LIBRARY_SELECTION geo_loc_name_country geo_loc_name_country_continent geo_loc_name SAMPLE_ID SHORT_SAMPLE_ID SAMPLE_NAME LAB_NUM CRUISE_ID FIELD_REGION YEAR FIELD_YEAR VENT latitude longitude ORIGIN_TYPE ORIGIN_DESCRIPTION FRENEMIES_PROJ LIBRARY RUN BIOSAMPLE BASES BYTES EXPERIMENT LIBRARY_NAME LIBRARY_SELECTION geo_loc_name_country geo_loc_name_country_continent geo_loc_name ")

File type: (more information) .asc - View OPeNDAP-style ISO-8859-1 comma-separated text. .csv - Download a ISO-8859-1 comma-separated text table (line 1: names; line 2: units; ISO 8601 times). .csvp - Download a ISO-8859-1 .csv file with line 1: name (units). Times are ISO 8601 strings. .csv0 - Download a ISO-8859-1 .csv file without column names or units. Times are ISO 8601 strings. .dataTable - A JSON file formatted for use with the Google Visualization client library (Google Charts). .das - View the dataset's metadata via an ISO-8859-1 OPeNDAP Dataset Attribute Structure (DAS). .dds - View the dataset's structure via an ISO-8859-1 OPeNDAP Dataset Descriptor Structure (DDS). .dods - OPeNDAP clients use this to download the data in the DODS binary format. .esriCsv - Download a ISO_8859_1 .csv file for ESRI's ArcGIS 9.x and below (separate date and time columns). .fgdc - View the dataset's UTF-8 FGDC .xml metadata. .geoJson - Download longitude,latitude,otherColumns data as a UTF-8 GeoJSON .json file. .graph - View a Make A Graph web page. .help - View a web page with a description of tabledap. .html - View an OPeNDAP-style HTML Data Access Form. .htmlTable - View a UTF-8 .html web page with the data in a table. Times are ISO 8601 strings. .iso19115 - View the dataset's ISO 19115-2/19139 UTF-8 .xml metadata. .itx - Download an ISO-8859-1 Igor Text File. Each response column becomes a wave. .json - View a table-like UTF-8 JSON file (missing value = 'null'; times are ISO 8601 strings). .jsonlCSV1 - View a UTF-8 JSON Lines CSV file with column names on line 1 (mv = 'null'; times are ISO 8601 strings). .jsonlCSV - View a UTF-8 JSON Lines CSV file without column names (mv = 'null'; times are ISO 8601 strings). .jsonlKVP - View a UTF-8 JSON Lines file with Key:Value pairs (missing value = 'null'; times are ISO 8601 strings). .mat - Download a MATLAB binary file. .nc - Download a flat, table-like, NetCDF-3 binary file with COARDS/CF/ACDD metadata. .ncHeader - View the UTF-8 header (the metadata) for the NetCDF-3 .nc file. .ncCF - Download a NetCDF-3 CF Discrete Sampling Geometries file (Contiguous Ragged Array). .ncCFHeader - View the UTF-8 header (the metadata) for the .ncCF file. .ncCFMA - Download a NetCDF-3 CF Discrete Sampling Geometries file (Multidimensional Array). .ncCFMAHeader - View the UTF-8 header (the metadata) for the .ncCFMA file. .nccsv - Download a NetCDF-3-like 7-bit ASCII NCCSV .csv file with COARDS/CF/ACDD metadata. .nccsvMetadata - View the dataset's metadata as the top half of a 7-bit ASCII NCCSV .csv file. .ncoJson - Download a UTF-8 NCO lvl=2 JSON file with COARDS/CF/ACDD metadata. .odvTxt - Download longitude,latitude,time,otherColumns as an ISO-8859-1 ODV Generic Spreadsheet File (.txt). .subset - View an HTML form which uses faceted search to simplify picking subsets of the data. .tsv - Download a ISO-8859-1 tab-separated text table (line 1: names; line 2: units; ISO 8601 times). .tsvp - Download a ISO-8859-1 .tsv file with line 1: name (units). Times are ISO 8601 strings. .tsv0 - Download a ISO-8859-1 .tsv file without column names or units. Times are ISO 8601 strings. .wav - Download a .wav audio file. All columns must be numeric and of the same type. .xhtml - View a UTF-8 XHTML (XML) file with the data in a table. Times are ISO 8601 strings. .kml - View a .kml file, suitable for Google Earth. .smallPdf - View a small .pdf image file with a graph or map. .pdf - View a standard, medium-sized .pdf image file with a graph or map. .largePdf - View a large .pdf image file with a graph or map. .smallPng - View a small .png image file with a graph or map. .png - View a standard, medium-sized .png image file with a graph or map. .largePng - View a large .png image file with a graph or map. .transparentPng - View a .png image file (just the data, without axes, landmask, or legend).

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The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  SAMPLE_ID {
    String long_name "Sample_id";
    String units "unitless";
  }
  SHORT_SAMPLE_ID {
    String long_name "Short_sample_id";
    String units "unitless";
  }
  SAMPLE_NAME {
    String long_name "Sample_name";
    String units "unitless";
  }
  LAB_NUM {
    String long_name "Lab_num";
    String units "unitless";
  }
  CRUISE_ID {
    String long_name "Cruise_id";
    String units "unitless";
  }
  FIELD_REGION {
    String long_name "Field_region";
    String units "unitless";
  }
  YEAR {
    String long_name "Year";
    String units "unitless";
  }
  FIELD_YEAR {
    String long_name "Field_year";
    String units "unitless";
  }
  VENT {
    String long_name "Vent";
    String units "unitless";
  }
  latitude {
    String _CoordinateAxisType "Lat";
    Float32 actual_range 18.3742, 46.27389;
    String axis "Y";
    String ioos_category "Location";
    String long_name "Latitude";
    String standard_name "latitude";
    String units "degrees_north";
  }
  longitude {
    String _CoordinateAxisType "Lon";
    Float32 actual_range -130.0137, -81.3779;
    String axis "X";
    String ioos_category "Location";
    String long_name "Longitude";
    String standard_name "longitude";
    String units "degrees_east";
  }
  ORIGIN_TYPE {
    String long_name "Origin_type";
    String units "unitless";
  }
  ORIGIN_DESCRIPTION {
    String long_name "Origin_description";
    String units "unitless";
  }
  FRENEMIES_PROJ {
    String long_name "Frenemies_proj";
    String units "unitless";
  }
  LIBRARY {
    String long_name "Library";
    String units "unitless";
  }
  RUN {
    String long_name "Run";
    String units "unitless";
  }
  BIOSAMPLE {
    String long_name "Biosample";
    String units "unitless";
  }
  BASES {
    Float32 actual_range 1.61, 64.38;
    String long_name "Bases";
    String units "Giga base pairs (Gb)";
  }
  BYTES {
    Float32 actual_range 0.53, 20.5;
    String long_name "Bytes";
    String units "Gigabytes";
  }
  EXPERIMENT {
    String long_name "Experiment";
    String units "unitless";
  }
  LIBRARY_NAME {
    String long_name "Library_name";
    String units "unitless";
  }
  LIBRARY_SELECTION {
    String long_name "Library_selection";
    String units "unitless";
  }
  geo_loc_name_country {
    String long_name "Geo_loc_name_country";
    String units "unitless";
  }
  geo_loc_name_country_continent {
    String long_name "Geo_loc_name_country_continent";
    String units "unitless";
  }
  geo_loc_name {
    String long_name "Geo_loc_name";
    String units "unitless";
  }
 }
  NC_GLOBAL {
    String cdm_data_type "Other";
    String Conventions "COARDS, CF-1.6, ACDD-1.3";
    String creator_email "info@bco-dmo.org";
    String creator_name "BCO-DMO";
    String creator_url "https://www.bco-dmo.org/";
    String doi "10.26008/1912/bco-dmo.936069.1";
    Float64 Easternmost_Easting -81.3779;
    Float64 geospatial_lat_max 46.27389;
    Float64 geospatial_lat_min 18.3742;
    String geospatial_lat_units "degrees_north";
    Float64 geospatial_lon_max -81.3779;
    Float64 geospatial_lon_min -130.0137;
    String geospatial_lon_units "degrees_east";
    String history 
"2024-12-18T18:13:21Z (local files)
2024-12-18T18:13:21Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_936069_v1.html";
    String infoUrl "https://www.bco-dmo.org/dataset/936069";
    String institution "BCO-DMO";
    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.";
    Float64 Northernmost_Northing 46.27389;
    String sourceUrl "(local files)";
    Float64 Southernmost_Northing 18.3742;
    String summary 
"This dataset is a collection of sample metadata, identified for all samples, and NCBI accession information for samples and sequence runs produced as part of the \"Microbes need frenemies\" project. This project examines trophic interactions among microbial eukaryotes, viruses, bacteria, and archaea at deep-sea hydrothermal vents using metagenomics and metatranscriptomics and characterizes these ecologically-significant interactions, such as mutualism, predator-prey, or virus-host. 

We sequenced samples collected during the 2020 expedition AT42-22 to the Mid-Cayman Rise hydrothermal vent fields, as well as from the 2019 expedition NA108 to the Gorda Ridge and the 2022 expedition TN405 to the Axial seamount. Sequencing targeted archaea, bacteria, and viruses with metagenomics and microbial eukaryotes with metatranscriptomics. We plan to use these data to identify ecologically-significant interactions among protists, viruses, bacteria, and archaea, with a specific emphasis on microbial mortality via viral lysis and eukaryotic grazing. Archived samples were also included in the analysis.";
    String title "[Metagenome and metatranscriptome sequences from deep-sea hydrothermal vent microbial communities] - Metagenome and metatranscriptome sequences from deep-sea hydrothermal vent microbial communities collected on cruises AT42-22, TN405, and NA108 from May 2019 to Jun 2022 (Collaborative Research: Microbes need frenemies: unveiling microbial relationships with protists and viruses that support deep-sea hydrothermal vent food webs)";
    Float64 Westernmost_Easting -130.0137;
  }
}

 

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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 Data Access Protocol (DAP) and its selection constraints.

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.

• (easy) You can get data by using the dataset's Data Access Form or Subset form. They make the URL for you.
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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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