http://lod.bco-dmo.org/id/dataset/862334
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2021-10-01
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Clownfish photos from the West coast of Leyte, the Philippines in the municipalities of Albuera and Bay Bay City between 2015 and 2018
2022-11-21
publication
2022-11-21
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2022-11-22
publication
https://doi.org/10.26008/1912/bco-dmo.862334.1
Malin Pinsky
Rutgers University
principalInvestigator
Michelle Stuart
Rutgers University
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Pinsky, M., Stuart, M. (2022) Clownfish photos from the West coast of Leyte, the Philippines in the municipalities of Albuera and Bay Bay City between 2015 and 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-11-21 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.862334.1 [access date]
Dataset Description: <p>Clownfish image zip files by year can be downloaded from the "Data Files" section of this page.&nbsp; This is an example clownfish&nbsp;image included in this dataset:<br />
<br />
<a href="https://datadocs.bco-dmo.org/file/nGrrrrRCxDN9L0/MICR3381.JPG" target="_blank"><img alt="example clownfish image" src="https://datadocs.bco-dmo.org/file/nGrrrrRCxDN9L0/MICR3381.JPG" style="width:600px" /></a><br />
See Related Datasets and Supplemental Files sections for other data collected as part of the same transect and quadrant surveys.</p> Methods and Sampling: <p>Photos taken of clownfish collected in the clownfish log dataset (https://www.bco-dmo.org/dataset/781917). Photo file numbers (e.g., img_XXX) are indicated in the clownfish log.&nbsp;<br />
<br />
Location: West coast of Leyte, Philippines in the municipalities of Albuera (10.91667, 124.69667) and Bay Bay City&nbsp; (10.676940, 124.799170). Field seasons (SCUBA) in Leyte, Philippines to study coral reef fish resilience.<br />
<br />
See the Supplemental Files section for species codes and tail codes used in this dataset along with the clownfish scientific names.<br />
&nbsp;</p>
<p>2015-2017 methods:</p>
<p>identified fish photos</p>
<p>- download fish photos from drive to laptop<br />
- match photos with data sheet using time stamp and description of tail color<br />
- Type in photo filename under column “file_name”<br />
- use images to open identified photos<br />
- in imagej, use caliper or paper lines (.45cm space between each line) to set scale<br />
- using scale, measure fish from tip of nose to longest point on tail<br />
- record measured length under column "imagej size"<br />
- measure same fish from tip of nose to the crease or fold in tail<br />
- record measured length under column "imagej forklength"<br />
- repeat with each photo</p>
<p>2018 methods:</p>
<p>- download fish photos from drive to laptop<br />
- match photos with data sheet using time stamp and description of tail color<br />
- Type in photo filename under column “file_name”<br />
- use images to open identified photos<br />
- in imagej, use caliper or paper lines (.35cm space between each line) to set scale<br />
- Using straight line tool, measured nose to point and nose to fork length<br />
- Used freehand tool to draw around whole tail and measure function to calculate area<br />
- If needed, measured small orange regions<br />
- record measured length under column "imagej size"<br />
- measure same fish from tip of nose to the crease or fold in tail<br />
- record measured length under column "imagej forklength"<br />
- repeat with each photo</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1430218 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1430218
completed
Malin Pinsky
Rutgers University
848-932-8242
14 College Farm Rd.
New Brunswick
NJ
08901
USA
malin.pinsky@rutgers.edu
pointOfContact
Michelle Stuart
Rutgers University
(848) 932-5515
ENR 168 14 College Farm Rd
New Brunswick
NJ
08901
USA
michelle.stuart@rutgers.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
date
obs_time
ISO_DateTime_UTC
sample_id
tag_id
size
col
image_time
image_name
image_folder
fish_table_id
gen_id
color
site
fish_notes
dive_notes
notes
unprocessed_images
imagej_size
imagej_forklength
tail_spread
tail_area
orange_area
file_analyzer
imageJ_collector
color_disagreement
photo_color
Example_Photo
Sealife Micro HD
theme
None, User defined
date_local
time_local
ISO_DateTime_UTC
sample identification
sample description
file_name
site
comments
fish_len
length
person name
featureType
BCO-DMO Standard Parameters
Underwater Camera
instrument
BCO-DMO Standard Instruments
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
RAPID: Mega-typhoon impacts on the metapopulation resilience of coral reef fishes
https://osprey.bco-dmo.org/project/554706
RAPID: Mega-typhoon impacts on the metapopulation resilience of coral reef fishes
<p><em>Description from NSF award abstract:</em><br />
When Typhoon Haiyan hit the Philippines it had sustained winds of 305 to 315 kph and was the strongest storm ever to make landfall. Storms are one of the most important disturbances to coral reef ecosystems. Previous research has primarily emphasized that habitat recovery is important for the recovery of reef fish communities after disturbance. We understand little, however, about the role of larval dispersal in mediating species responses to disturbance. Reef fish function as metapopulations connected by larval dispersal among reefs, and larval connectivity is therefore a critical process for their dynamics. A field site directly in Typhoon Haiyan's path provides an ideal opportunity to address the role of larval dispersal during recovery. Over the course of four field seasons (2008 to 2013), nearly two thousand clownfish were surveyed along 20km of coastline. Clownfish possess the same basic life history as most reef fish (sedentary adults and pelagic larvae), but are sufficiently rare and visible that genetic parentage methods can be used to follow larval dispersal. This study site is therefore a unique location in which to understand the metapopulation impacts of a massive storm. This project will focus on three hypotheses: 1) Habitat destruction determines the short-term impacts of storms disturbance, 2) Metapopulation processes shape recolonization after disturbance, and 3) Disturbance allows rare competitors to increase in abundance. The project will address these questions with a combination of fixed and random transects to assess reef habitat and reef fish abundance and diversity, as well as detailed, spatially explicit surveys of anemones and clownfish. Genetic mark-recapture and parentage methods with yellowtail clownfish will pinpoint the origin of new recruits that recolonize the reef post-typhoon.</p>
Reef Fish Resilience
largerWorkCitation
project
eng; USA
oceans
124.555
124.8083
10.6299
11.0165
2015-05-28
2018-04-10
West coast of Leyte Island, Visayas, Philippines
0
BCO-DMO catalogue of parameters from Clownfish photos from the West coast of Leyte, the Philippines in the municipalities of Albuera and Bay Bay City between 2015 and 2018
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/879031.rdf
Name: date
Units: unitless
Description: <p>Date of observation (local time zone, UTC+8) in ISO 8601 format YYYY-MM-DD</p>
http://lod.bco-dmo.org/id/dataset-parameter/879032.rdf
Name: obs_time
Units: unitless
Description: <p>Time of observation (local time zone, UTC+8) in ISO 8601 format hh:mm:ss</p>
http://lod.bco-dmo.org/id/dataset-parameter/879033.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Date and time of observation (UTC) in ISO 8601 format YYYY-MM-DDThh:mm:ssZ</p>
http://lod.bco-dmo.org/id/dataset-parameter/879034.rdf
Name: sample_id
Units: unitless
Description: <p>sample id number for fin-clip (if taken)</p>
http://lod.bco-dmo.org/id/dataset-parameter/879035.rdf
Name: tag_id
Units: unitless
Description: <p>PIT tag number</p>
http://lod.bco-dmo.org/id/dataset-parameter/879036.rdf
Name: size
Units: centimeters
Description: <p>size measured in field</p>
http://lod.bco-dmo.org/id/dataset-parameter/879037.rdf
Name: col
Units: unitless
Description: <p>tail color noted in field (see supplemental files for tail codes)</p>
http://lod.bco-dmo.org/id/dataset-parameter/879038.rdf
Name: image_time
Units: unitless
Description: <p>time photo was taken (local time zone, UTC+8) in ISO 8601 format hh:mm:ss</p>
http://lod.bco-dmo.org/id/dataset-parameter/879039.rdf
Name: image_name
Units: unitless
Description: <p>photo file name</p>
http://lod.bco-dmo.org/id/dataset-parameter/879040.rdf
Name: image_folder
Units: unitless
Description: <p>Name of folder the image is contained in within the .zip file bundles (e.g. folder "2015_05_clownfish_images" is contained in zip file bundle 2015_05_clownfish_images.zip)</p>
http://lod.bco-dmo.org/id/dataset-parameter/879042.rdf
Name: fish_table_id
Units: unitless
Description: <p>Identifier for fish table. This fish_table_id is also in the "clownfish log" dataset <a href="https://www.bco-dmo.org/dataset/781917">https://www.bco-dmo.org/dataset/781917</a>.</p>
http://lod.bco-dmo.org/id/dataset-parameter/879043.rdf
Name: gen_id
Units: unitless
Description: <p>genotype identification number</p>
http://lod.bco-dmo.org/id/dataset-parameter/879044.rdf
Name: color
Units: unitless
Description: <p>tail color noted in field</p>
http://lod.bco-dmo.org/id/dataset-parameter/879045.rdf
Name: site
Units: unitless
Description: <p>Site name</p>
http://lod.bco-dmo.org/id/dataset-parameter/879046.rdf
Name: fish_notes
Units: unitless
Description: <p>Fish notes</p>
http://lod.bco-dmo.org/id/dataset-parameter/879047.rdf
Name: dive_notes
Units: unitless
Description: <p>Dive notes</p>
http://lod.bco-dmo.org/id/dataset-parameter/879048.rdf
Name: notes
Units: unitless
Description: <p>additional notes</p>
http://lod.bco-dmo.org/id/dataset-parameter/879049.rdf
Name: unprocessed_images
Units: unitless
Description: <p>Other images for fish that were not processed</p>
http://lod.bco-dmo.org/id/dataset-parameter/879050.rdf
Name: imagej_size
Units: centimeters
Description: <p>total length measured from the image using imageJ</p>
http://lod.bco-dmo.org/id/dataset-parameter/879051.rdf
Name: imagej_forklength
Units: centimeters
Description: <p>fork length measured from the image using imageJ</p>
http://lod.bco-dmo.org/id/dataset-parameter/879052.rdf
Name: tail_spread
Units: unitless
Description: <p>is the tail spread out so that it is all visible</p>
http://lod.bco-dmo.org/id/dataset-parameter/879053.rdf
Name: tail_area
Units: square cm (cm2)
Description: <p>area of the tail calculated using imageJ</p>
http://lod.bco-dmo.org/id/dataset-parameter/879054.rdf
Name: orange_area
Units: square cm (cm2)
Description: <p>area of the tail that is orange calculated using imageJ</p>
http://lod.bco-dmo.org/id/dataset-parameter/879055.rdf
Name: file_analyzer
Units: unitless
Description: <p>Initials of the person who examined the photo</p>
http://lod.bco-dmo.org/id/dataset-parameter/879056.rdf
Name: imageJ_collector
Units: unitless
Description: <p>initials of the person who ran the imageJ script</p>
http://lod.bco-dmo.org/id/dataset-parameter/879057.rdf
Name: color_disagreement
Units: unitless
Description: <p>A flag to indicate if the tail color listed on the field datasheet does not match the color interpreted from the photo. If there is disagreement, further review would be required to A) make sure the photo is actually of that fish B) discover why there would be a difference between the field collector's interpretation and the photo reviewer's interpretation (sometimes fish size or other fish present on the anemone influence the field collector's interpretation; for example, we do not expect two large females on one anemone). A "Y", "N", or a photo reviewer's initials indicate a disagreement.</p>
http://lod.bco-dmo.org/id/dataset-parameter/879058.rdf
Name: photo_color
Units: unitless
Description: <p><em>The clownfish tail color interpreted from the photo</em></p>
http://lod.bco-dmo.org/id/dataset-parameter/879059.rdf
Name: Example_Photo
Units: unitless
Description: <p>The image selected by the photo reviewer as the best of this particular fish</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
3264293264
https://darchive.mblwhoilibrary.org/bitstream/1912/29525/1/2018_clownfish_photos.zip
download
1289352651
https://darchive.mblwhoilibrary.org/bitstream/1912/29525/2/2017_clownfish_images.zip
download
2266740902
https://darchive.mblwhoilibrary.org/bitstream/1912/29525/3/2016_clownfish_images.zip
download
1758232512
https://darchive.mblwhoilibrary.org/bitstream/1912/29525/4/2015_05_clownfish_images.zip
download
666814
https://darchive.mblwhoilibrary.org/bitstream/1912/29525/5/dataset-862334_clownfish-photos__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.862334.1
download
onLine
dataset
<p>Photos taken of clownfish collected in the clownfish log dataset (https://www.bco-dmo.org/dataset/781917). Photo file numbers (e.g., img_XXX) are indicated in the clownfish log.&nbsp;<br />
<br />
Location: West coast of Leyte, Philippines in the municipalities of Albuera (10.91667, 124.69667) and Bay Bay City&nbsp; (10.676940, 124.799170). Field seasons (SCUBA) in Leyte, Philippines to study coral reef fish resilience.<br />
<br />
See the Supplemental Files section for species codes and tail codes used in this dataset along with the clownfish scientific names.<br />
&nbsp;</p>
<p>2015-2017 methods:</p>
<p>identified fish photos</p>
<p>- download fish photos from drive to laptop<br />
- match photos with data sheet using time stamp and description of tail color<br />
- Type in photo filename under column “file_name”<br />
- use images to open identified photos<br />
- in imagej, use caliper or paper lines (.45cm space between each line) to set scale<br />
- using scale, measure fish from tip of nose to longest point on tail<br />
- record measured length under column "imagej size"<br />
- measure same fish from tip of nose to the crease or fold in tail<br />
- record measured length under column "imagej forklength"<br />
- repeat with each photo</p>
<p>2018 methods:</p>
<p>- download fish photos from drive to laptop<br />
- match photos with data sheet using time stamp and description of tail color<br />
- Type in photo filename under column “file_name”<br />
- use images to open identified photos<br />
- in imagej, use caliper or paper lines (.35cm space between each line) to set scale<br />
- Using straight line tool, measured nose to point and nose to fork length<br />
- Used freehand tool to draw around whole tail and measure function to calculate area<br />
- If needed, measured small orange regions<br />
- record measured length under column "imagej size"<br />
- measure same fish from tip of nose to the crease or fold in tail<br />
- record measured length under column "imagej forklength"<br />
- repeat with each photo</p>
Specified by the Principal Investigator(s)
<p>BCO-DMO Data Manager Processing Notes:<br />
* tables contained in the following excel files imported into the BCO-DMO data system and combined into one table served from this page.&nbsp;clownfish_photo_data_2015-2016.xlsx,clownfish_photo_data_2017.xlsx,clownfish_photo_data_2018.xlsx<br />
* jpg extension added to filename data column.<br />
* added image_folder column to indicate which folder within the .zip files the image is contained in.<br />
* date format changed to ISO 8601 format yyyy-mm-dd<br />
* replaced commas with semicolons within values<br />
* column "greyed_out" removed upon submiter request as it was only useful to project management.</p>
Specified by the Principal Investigator(s)
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
Sealife Micro HD
Sealife Micro HD
PI Supplied Instrument Name: Sealife Micro HD PI Supplied Instrument Description:Sealife Micro HD (13 megapixel photos, 1080p video, 140 degree super-wide photos) Instrument Name: Underwater Camera Instrument Short Name: Instrument Description: All types of photographic equipment that may be deployed underwater including stills, video, film and digital systems. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/180/