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fishsense.bib
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@InProceedings{Agrawal2012,
author = {Amit Agrawal and Srikumar Ramalingam and Yuichi Taguchi and Visesh Chari},
booktitle = {2012 {IEEE} Conference on Computer Vision and Pattern Recognition},
title = {A theory of multi-layer flat refractive geometry},
year = {2012},
month = {jun},
publisher = {{IEEE}},
doi = {10.1109/cvpr.2012.6248073},
groups = {Optics},
}
@Article{AkshitaSaini2019,
author = {Akshita Saini, Mantosh Biswas},
journal = {ICOEI},
title = {Object Detection in Underwater Image by DetectingEdges using Adaptive Thresholding},
year = {2019},
groups = {Image Processing, Fish Analysis},
}
@Article{Amitai2022,
author = {Amitai, Shlomi and Klein, Itzik and Treibitz, Tali},
title = {Self-Supervised Monocular Depth Underwater},
year = {2022},
month = oct,
abstract = {Depth estimation is critical for any robotic system. In the past years estimation of depth from monocular images have shown great improvement, however, in the underwater environment results are still lagging behind due to appearance changes caused by the medium. So far little effort has been invested on overcoming this. Moreover, underwater, there are more limitations for using high resolution depth sensors, this makes generating ground truth for learning methods another enormous obstacle. So far unsupervised methods that tried to solve this have achieved very limited success as they relied on domain transfer from dataset in air. We suggest training using subsequent frames self-supervised by a reprojection loss, as was demonstrated successfully above water. We suggest several additions to the self-supervised framework to cope with the underwater environment and achieve state-of-the-art results on a challenging forward-looking underwater dataset.},
archiveprefix = {arXiv},
copyright = {Creative Commons Attribution Non Commercial Share Alike 4.0 International},
doi = {10.48550/ARXIV.2210.03206},
eprint = {2210.03206},
file = {:http\://arxiv.org/pdf/2210.03206v1:PDF},
groups = {Monocular Depth Camera},
keywords = {Computer Vision and Pattern Recognition (cs.CV), Robotics (cs.RO), FOS: Computer and information sciences},
primaryclass = {cs.CV},
publisher = {arXiv},
}
@Article{Baba2001,
author = {Mitsuru Baba and Kozo Ohtani and Makoto Imai and Tadataka Konishi},
journal = {Optical Engineering},
title = {{New laser rangefinder for three-dimensional shape measurement of specular objects}},
year = {2001},
number = {1},
pages = {53 -- 60},
volume = {40},
doi = {10.1117/1.1331269},
groups = {Laser Rangefinder},
keywords = {Image sensors, Photomasks, Reflectivity, Charge-coupled devices, Commercial off the shelf technology, Metals, Optical engineering, 3D metrology, Projection systems, Prototyping},
publisher = {SPIE},
url = {https://doi.org/10.1117/1.1331269},
}
@Article{Barreto2013,
author = {Saulo Vinicius Ferreira Barreto and Remy Eskinazi Sant'Anna and Marc{\'i}lio Andr{\'e} F{\'e}lix Feitosa},
journal = {2013 IEEE 20th International Conference on Electronics, Circuits, and Systems (ICECS)},
title = {A method for image processing and distance measuring based on laser distance triangulation},
year = {2013},
pages = {695-698},
groups = {Laser Rangefinder},
url = {https://api.semanticscholar.org/CorpusID:17466529},
}
@Article{Bell1985,
author = {Bell, JD and Craik, GJS and Pollard, DA and Russell, BC},
journal = {Coral Reefs},
title = {Estimating length frequency distributions of large reef fish underwater},
year = {1985},
pages = {41--44},
volume = {4},
doi = {https://doi.org/10.1007/BF00302203},
groups = {Fish Analysis},
publisher = {Springer},
}
@Article{BERGERON2007,
author = {PATRICK BERGERON},
journal = {Journal of Wildlife Management},
title = {Parallel Lasers for Remote Measurements of Morphological Traits},
year = {2007},
month = {feb},
number = {1},
pages = {289--292},
volume = {71},
doi = {10.2193/2006-290},
groups = {Laser Rangefinder},
publisher = {Wiley},
}
@Article{Boudhane2016,
author = {Mohcine Boudhane and Benayad Nsiri},
journal = {Journal of Visual Communication and Image Representation},
title = {Underwater image processing method for fish localization and detection in submarine environment},
year = {2016},
month = {aug},
pages = {226--238},
volume = {39},
doi = {10.1016/j.jvcir.2016.05.017},
groups = {Fish Analysis},
publisher = {Elsevier {BV}},
}
@Article{Breuer2007,
author = {Breuer, Thomas and Robbins, Martha M. and Boesch, Christophe},
journal = {American Journal of Physical Anthropology},
title = {Using photogrammetry and color scoring to assess sexual dimorphism in wild western gorillas (Gorilla gorilla)},
year = {2007},
number = {3},
pages = {369-382},
volume = {134},
doi = {https://doi.org/10.1002/ajpa.20678},
eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1002/ajpa.20678},
groups = {Laser Rangefinder},
keywords = {coloration, body length, photogrammetry, sagittal crest, sexual selection},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1002/ajpa.20678},
}
@Article{Buchsbaum1980,
author = {G. Buchsbaum},
journal = {Journal of the Franklin Institute},
title = {A spatial processor model for object colour perception},
year = {1980},
issn = {0016-0032},
number = {1},
pages = {1-26},
volume = {310},
abstract = {A comprehensive mathematical model to account for colour constancy is formulated. Since the visual system is able to measure true object colour in complex scenes under a broad range of spectral compositions, for the illumination; it is assumed that the visual system must implicitly estimate and illuminant. The basic hypothesis is that the estimate of the illuminant is made on the basis of spatial information from the entire visual field. This estimate is then used by the visual system to arrive at an estimate of the (object) reflectance of the various subfields in the complex visual scene. The estimates are made by matching the inputs to the system to linear combinations of fixed bases and standards in the colour space. The model provides a general unified mathematical framework for related psychophysical phenomenology.},
doi = {https://doi.org/10.1016/0016-0032(80)90058-7},
groups = {Image Processing},
url = {https://www.sciencedirect.com/science/article/pii/0016003280900587},
}
@Article{Caldwell2016,
author = {Caldwell, Zachary R. AND Zgliczynski, Brian J. AND Williams, Gareth J. AND Sandin, Stuart A.},
journal = {PLOS ONE},
title = {Reef Fish Survey Techniques: Assessing the Potential for Standardizing Methodologies},
year = {2016},
month = {04},
number = {4},
pages = {1-14},
volume = {11},
abstract = {Dramatic changes in populations of fishes living on coral reefs have been documented globally and, in response, the research community has initiated efforts to assess and monitor reef fish assemblages. A variety of visual census techniques are employed, however results are often incomparable due to differential methodological performance. Although comparability of data may promote improved assessment of fish populations, and thus management of often critically important nearshore fisheries, to date no standardized and agreed-upon survey method has emerged. This study describes the use of methods across the research community and identifies potential drivers of method selection. An online survey was distributed to researchers from academic, governmental, and non-governmental organizations internationally. Although many methods were identified, 89% of survey-based projects employed one of three methods - belt transect, stationary point count, and some variation of the timed swim method. The selection of survey method was independent of the research design (i.e., assessment goal) and region of study, but was related to the researchers home institution. While some researchers expressed willingness to modify their current survey protocols to more standardized protocols (76%), their willingness decreased when methodologies were tied to long-term datasets spanning five or more years. Willingness to modify current methodologies was also less common among academic researchers than resource managers. By understanding both the current application of methods and the reported motivations for method selection, we hope to focus discussions towards increasing the comparability of quantitative reef fish survey data.},
doi = {10.1371/journal.pone.0153066},
groups = {Fish Analysis},
publisher = {Public Library of Science},
url = {https://doi.org/10.1371/journal.pone.0153066},
}
@Article{Cavan2021,
author = {Emma L. Cavan and Simeon L. Hill},
journal = {Global Change Biology},
title = {Commercial fishery disturbance of the global ocean biological carbon sink},
year = {2021},
month = {dec},
number = {4},
pages = {1212--1221},
volume = {28},
doi = {10.1111/gcb.16019},
groups = {Ecology},
publisher = {Wiley},
}
@Article{Cavedo2016,
author = {Cavedo, Federico and Norgia, Michele and Pesatori, Alessandro and Solari, Gabriel E.},
journal = {IEEE Transactions on Instrumentation and Measurement},
title = {Steel Pipe Measurement System Based on Laser Rangefinder},
year = {2016},
number = {6},
pages = {1472-1477},
volume = {65},
doi = {10.1109/TIM.2016.2514758},
groups = {Laser Rangefinder},
}
@Article{Churnside2012,
author = {Churnside, James and Jech, Michael and Tenningen, Eirik and McElderry, Howard and O'Driscoll, Richard and Ryan, Tim E and Shortis, Mark R and Smith, Stephen J and aldo Wakefield, WW},
title = {Fishery applications of optical technologies},
year = {2012},
groups = {Stereo Camera},
url = {https://www.vliz.be/imisdocs/publications/ocrd/236653.pdf},
}
@Article{Cisar2021,
author = {Petr Cisar and Dinara Bekkozhayeva and Oleksandr Movchan and Mohammadmehdi Saberioon and Rudolf Schraml},
journal = {Scientific Reports},
title = {Computer vision based individual fish identification using skin dot pattern},
year = {2021},
month = {aug},
number = {1},
volume = {11},
doi = {10.1038/s41598-021-96476-4},
file = {:https\://www.nature.com/articles/s41598-021-96476-4.pdf:PDF},
groups = {Fish Analysis},
publisher = {Springer Science and Business Media {LLC}},
}
@Article{COOKE2007,
author = {S. J. COOKE and H. L. SCHRAMM},
journal = {Fisheries Management and Ecology},
title = {Catch-and-release science and its application to conservation and management of recreational fisheries},
year = {2007},
month = {apr},
number = {2},
pages = {73--79},
volume = {14},
doi = {10.1111/j.1365-2400.2007.00527.x},
groups = {Ecology},
publisher = {Wiley},
}
@Software{Crutchfield_FishSense-Lite,
author = {Crutchfield, Christopher L. and Hu, Kyle S. and Suresh, Vivaswat and Grant, Hamish J. and Perez, Ana I.},
license = {BSD-3-Clause},
title = {{FishSense-Lite}},
url = {https://github.com/UCSD-E4E/fishsense-lite},
}
@InProceedings{Dawkins2017,
author = {Matthew Dawkins and Linus Sherrill and Keith Fieldhouse and Anthony Hoogs and Benjamin Richards and David Zhang and Lakshman Prasad and Kresimir Williams and Nathan Lauffenburger and Gaoang Wang},
booktitle = {2017 {IEEE} Winter Conference on Applications of Computer Vision ({WACV})},
title = {An Open-Source Platform for Underwater Image and Video Analytics},
year = {2017},
month = {mar},
publisher = {{IEEE}},
doi = {10.1109/wacv.2017.105},
groups = {Fish Analysis},
}
@Article{Duda1979,
author = {Richard O. Duda and David Nitzan and Phyllis Barrett},
journal = {{IEEE} Transactions on Pattern Analysis and Machine Intelligence},
title = {Use of Range and Reflectance Data to Find Planar Surface Regions},
year = {1979},
month = {jul},
number = {3},
pages = {259--271},
volume = {{PAMI}-1},
doi = {10.1109/tpami.1979.4766922},
groups = {Laser Rangefinder},
publisher = {Institute of Electrical and Electronics Engineers ({IEEE})},
}
@Article{Dyck2010,
author = {Andrew J. Dyck and U. Rashid Sumaila},
journal = {Journal of Bioeconomics},
title = {Economic impact of ocean fish populations in the global fishery},
year = {2010},
month = {aug},
number = {3},
pages = {227--243},
volume = {12},
doi = {10.1007/s10818-010-9088-3},
groups = {Ecology},
publisher = {Springer Science and Business Media {LLC}},
}
@Article{Ebrahim2015,
author = {Ebrahim, Mostafa Abdel-Bary},
journal = {Int J Sci Res},
title = {3D laser scanners' techniques overview},
year = {2015},
number = {10},
pages = {323--331},
volume = {4},
groups = {Laser Rangefinder},
}
@Article{Falkenberg2020,
author = {Laura J. Falkenberg and Richard G.J. Bellerby and Sean D. Connell and Lora E. Fleming and Bruce Maycock and Bayden D. Russell and Francis J. Sullivan and Sam Dupont},
journal = {International Journal of Environmental Research and Public Health},
title = {Ocean Acidification and Human Health},
year = {2020},
month = {jun},
number = {12},
pages = {4563},
volume = {17},
doi = {10.3390/ijerph17124563},
groups = {Ecology},
publisher = {{MDPI} {AG}},
}
@Article{Feely2001,
author = {Feely, Richard A and Sabine, Christopher L and Takahashi, Taro and Wanninkhof, Rik and others},
journal = {OCEANOGRAPHY-WASHINGTON DC-OCEANOGRAPHY SOCIETY-},
title = {Uptake and storage of carbon dioxide in the ocean: The global co2 survey},
year = {2001},
number = {4},
pages = {18--32},
volume = {14},
groups = {Ecology},
publisher = {The Oceanographic Society; 1999},
url = {https://pdfs.semanticscholar.org/d54b/bb1529943644f11467177be81b93fa30f8d8.pdf},
}
@Online{Fishial2023,
author = {Fishial},
groups = {Fish Analysis},
organization = {Fishial.AI},
title = {Home | Fishial},
url = {https://fishial.ai/},
year = {2023},
}
@Article{Forrest2023,
author = {Forrest, Matthew J. and Favoretto, Fabio and Nisa, Zahidah A. and Aburto-Oropeza, Octavio},
journal = {Frontiers in Marine Science},
title = {A deeper dive into the blue economy: the role of the diving sector in conservation and sustainable development goals},
year = {2023},
issn = {2296-7745},
volume = {10},
abstract = {Attaining an equitable Blue Economy requires reconsidering historical extractive usages of natural ocean capital in favor of more sustainable activities. Scuba diving is an expanding industry, and several examples illustrate how the diving sector has assisted with transitions to sustainable economic activities. In certain countries diving tourism generates revenues comparable with fishing industries, yet the sector remains underrepresented within marine conservation efforts. Therefore, we present five actions tailored to enhance the diving sector’s participation in the Blue Economy: i) Organize the fragmented sector via international associations and federations; ii) Recognize usage rights for natural capital equal to extractive activities; iii) Modernize the sector using technology to improve connectivity and data sharing; iv) Invest in the sector by engaging private and public funding and subsidizing critical infrastructure to enable equitable access; v) Foster a sense of community by training and supporting local leaders, thereby ensuring more equitable participation by including women, indigenous people, and the youth. Diving represents one of the only endeavors that enables citizens to actively support the Blue Economy and help to achieve the United Nations Sustainable Development Goal 14, “Life Below Water”; therefore, the diving sector is uniquely poised to help address conservation goals and sustainable development.},
doi = {10.3389/fmars.2023.1212790},
groups = {Ecology},
url = {https://www.frontiersin.org/articles/10.3389/fmars.2023.1212790},
}
@Article{Fu2014,
author = {Fu, Xueyang and Zhuang, Peixian and Huang, Yue and Liao, Yinghao and Zhang, Xiao-Ping and Ding, Xinghao},
journal = {2014 IEEE International Conference on Image Processing (ICIP)},
title = {A retinex-based enhancing approach for single underwater image},
year = {2014},
groups = {Image Processing, Fish Analysis},
}
@Article{Gaygusuz2006,
author = {Gaygusuz, {\" O}zcan and G{\" u}rsoy, {\c C}i{\u g}dem and {\" O}zulu{\u g}, M{\" u}fit and Tarkan, Ali Serhan and Ac{\i}p{\i}nar, Hasan and Bilge, G{\" o}k{\c c}en and Filiz, Halit},
journal = {Turkish Journal of Fisheriez and Aquatic Sciences},
title = {Conversions of Total, Fork and Standard Length Measurements Based on 42 Marine and Freshwater Fish Species (from Turkish Waters)},
year = {2006},
issn = {1303-2712},
number = {2},
pages = {-},
volume = {6},
groups = {Fish Analysis},
key = {cite},
publisher = {Trabzon Su {\" U}r{\" u}nleri Merkez Ara{\c s}t{\i}rma Enstit{\" u}s{\" u}},
}
@InProceedings{Gedge2011,
author = {Jason Gedge and Minglun Gong and Yee-Hong Yang},
booktitle = {2011 Canadian Conference on Computer and Robot Vision},
title = {Refractive Epipolar Geometry for Underwater Stereo Matching},
year = {2011},
month = {may},
publisher = {{IEEE}},
doi = {10.1109/crv.2011.26},
groups = {Stereo Camera, Optics},
}
@Article{Goetze2019,
author = {Goetze, Jordan S. and Bond, Todd. and McLean, Dianne L. and Saunders, Benjamin J. and Langlois, Tim J. and Lindfield, Steve and Fullwood, Laura. A. F. and Driessen, Damon and Shedrawi, George and Harvey, Euan S.},
journal = {Methods in Ecology and Evolution},
title = {A field and video analysis guide for diver operated stereo-video},
year = {2019},
number = {7},
pages = {1083-1090},
volume = {10},
doi = {https://doi.org/10.1111/2041-210X.13189},
eprint = {https://besjournals.onlinelibrary.wiley.com/doi/pdf/10.1111/2041-210X.13189},
groups = {Stereo Camera, Fish Analysis},
keywords = {biodiversity, conservation, fish assemblages, fisheries management, monitoring, sampling, stereo video, surveys},
url = {https://besjournals.onlinelibrary.wiley.com/doi/abs/10.1111/2041-210X.13189},
}
@Article{HakkiCanKaraimer,
author = {Hakki Can Karaimer, Michael S. Brown},
title = {A Software Platform for Manipulating the Camera Imaging Pipeline},
doi = {https://doi.org/10.1007/978-3-319-46448-0_26},
groups = {Image Processing},
}
@Article{Hamid2022,
author = {Mohd Saad Hamid and NurulFajar Abd Manap and Rostam Affendi Hamzah and Ahmad Fauzan Kadmin},
journal = {Journal of King Saud University - Computer and Information Sciences},
title = {Stereo matching algorithm based on deep learning: A survey},
year = {2022},
month = {may},
number = {5},
pages = {1663--1673},
volume = {34},
doi = {10.1016/j.jksuci.2020.08.011},
groups = {Stereo Camera},
publisher = {Elsevier {BV}},
}
@InProceedings{Hamilton2021,
author = {Scott Hamilton and Rick Starr and Dean Wendt and Benjamin Ruttenberg and Jennifer Caselle and Brice Semmens and Lyall Bellquist and Steven Morgan and Tim Mulligan and Joe Tyburczy and Shelby Ziegler and Rachel Brooks and Grant Waltz and Erica Mason and Chris Honeyman and Sadie Small and Jay Staton},
title = {CCFRP Final Report},
year = {2021},
groups = {Ecology},
url = {https://caseagrant.ucsd.edu/sites/default/files/CCFRP_Final_Report.pdf},
}
@InProceedings{Harris1988,
author = {Harris, Chris and Stephens, Mike and others},
booktitle = {Alvey vision conference},
title = {A combined corner and edge detector},
year = {1988},
number = {50},
organization = {Citeseer},
pages = {10--5244},
volume = {15},
groups = {Camera Calibration},
}
@Article{Harvey2001,
author = {Harvey, Euan and Fletcher, D. and Shortis, Mark},
journal = {Fisheries Bulletin},
title = {A comparison of the precision and accuracy of estimates of reef-fish length made by divers and a stereo-video system},
year = {2001},
month = {01},
pages = {38-49},
volume = {36},
}
@Article{Harvey2002,
author = {Harvey, Euan and Fletcher, David and Shortis, Mark},
journal = {Fisheries Research},
title = {Estimation of reef fish length by divers and by stereo-video: a first comparison of the accuracy and precision in the field on living fish under operational conditions},
year = {2002},
number = {3},
pages = {255--265},
volume = {57},
groups = {Fish Analysis},
publisher = {Elsevier},
}
@Article{Heppell2012,
author = {Scott A. Heppell and Brice X. Semmens and Stephanie K. Archer and Christy V. Pattengill-Semmens and Philippe G. Bush and Croy M. McCoy and Selina S. Heppell and Bradley C. Johnson},
journal = {Biological Conservation},
title = {Documenting recovery of a spawning aggregation through size frequency analysis from underwater laser calipers measurements},
year = {2012},
month = {oct},
pages = {119--127},
volume = {155},
doi = {10.1016/j.biocon.2012.06.002},
groups = {Ecology},
publisher = {Elsevier {BV}},
}
@Article{Hu2023,
author = {Xiao Hu and F. Lauze and Kim Steenstrup Pedersen},
journal = {International Journal of Computer Vision},
title = {Refractive Pose Refinement},
year = {2023},
pages = {1448-1476},
volume = {131},
doi = {10.1007/s11263-023-01763-4},
groups = {Stereo Camera, Optics},
}
@Article{Huang2020,
author = {Guangyi Huang and Yongyi Gong and Qingzhen Xu and Kanoksak Wattanachote and Kun Zeng and Xiaonan Luo},
journal = {{IEEE} Access},
title = {A Convolutional Attention Residual Network for Stereo Matching},
year = {2020},
pages = {50828--50842},
volume = {8},
doi = {10.1109/access.2020.2980243},
groups = {Stereo Camera},
publisher = {Institute of Electrical and Electronics Engineers ({IEEE})},
}
@Article{Huntingford2013,
author = {F. A. Huntingford and F. L. Bor{\c{c}}ato and F. O. Mesquita},
journal = {Journal of Fish Biology},
title = {Identifying individual common carp Cyprinus carpio using scale pattern},
year = {2013},
month = {oct},
number = {5},
pages = {1453--1458},
volume = {83},
doi = {10.1111/jfb.12246},
groups = {Fish Analysis},
publisher = {Wiley},
}
@Article{Hutchings2004,
author = {Hutchings, Jeffrey A. and Reynolds, John D.},
journal = {BioScience},
title = {{Marine Fish Population Collapses: Consequences for Recovery and Extinction Risk}},
year = {2004},
issn = {0006-3568},
month = {04},
number = {4},
pages = {297-309},
volume = {54},
abstract = {Rapid declines threaten the persistence of many marine fish. Data from more than 230 populations reveal a median reduction of 83\% in breeding population size from known historic levels. Few populations recover rapidly; most exhibit little or no change in abundance up to 15 years after a collapse. Reductions in fishing pressure, although clearly necessary for population recovery, are often insufficient. Persistence and recovery are also influenced by life history, habitat alteration, changes to species assemblages, genetic responses to exploitation, and reductions in population growth attributable to the Allee effect, also known as depensation. Heightened extinction risks were highlighted recently when a Canadian population of Atlantic cod (Gadus morhua) was listed as endangered, on the basis of declines as high as 99.9\% over 30 years. Unprecedented reductions in abundance and surprisingly low rates of recovery draw attention to scientists' limited understanding of how fish behavior, habitat, ecology, and evolution affect population growth at low abundance. Failure to prevent population collapses, and to take the conservation biology of marine fishes seriously, will ensure that many severely depleted species remain ecological and numerical shadows in the ecosystems that they once dominated.},
doi = {10.1641/0006-3568(2004)054[0297:MFPCCF]2.0.CO;2},
eprint = {https://academic.oup.com/bioscience/article-pdf/54/4/297/26895516/54-4-297.pdf},
groups = {Ecology},
url = {https://doi.org/10.1641/0006-3568(2004)054[0297:MFPCCF]2.0.CO;2},
}
@Article{Huttenlocher1993,
author = {D.P. Huttenlocher and G.A. Klanderman and W.J. Rucklidge},
journal = {{IEEE} Transactions on Pattern Analysis and Machine Intelligence},
title = {Comparing images using the Hausdorff distance},
year = {1993},
number = {9},
pages = {850--863},
volume = {15},
doi = {10.1109/34.232073},
groups = {Image Processing},
publisher = {Institute of Electrical and Electronics Engineers ({IEEE})},
}
@Article{JanuchowskiHartley2011,
author = {Fraser A. Januchowski-Hartley and Nicholas A. J. Graham and David A. Feary and Tau Morove and Joshua E. Cinner},
journal = {{PLoS} {ONE}},
title = {Fear of Fishers: Human Predation Explains Behavioral Changes in Coral Reef Fishes},
year = {2011},
month = {aug},
number = {8},
pages = {e22761},
volume = {6},
doi = {10.1371/journal.pone.0022761},
editor = {Julian Clifton},
groups = {Ecology, Fish Analysis},
publisher = {Public Library of Science ({PLoS})},
}
@Article{Jaquet2006,
author = {Jaquet, Nathalie},
journal = {Marine Mammal Science},
title = {A SIMPLE PHOTOGRAMMETRIC TECHNIQUE TO MEASURE SPERM WHALES AT SEA},
year = {2006},
number = {4},
pages = {862-879},
volume = {22},
doi = {https://doi.org/10.1111/j.1748-7692.2006.00060.x},
eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1748-7692.2006.00060.x},
groups = {Fish Analysis, Laser Rangefinder},
keywords = {sperm whale, Physeter macrocephalus, photogrammetry, length distribution},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1748-7692.2006.00060.x},
}
@Book{Jennings2001,
author = {Jennings, Simon and Kaiser, Michel J. and Reynolds, John D.},
publisher = {Blackwell Science},
title = {Marine fisheries ecology},
year = {2001},
address = {Oxford ;},
isbn = {9781444311358},
abstract = {"This textbook describes fisheries exploitation, biology, conservation and management, and reflects many recent and important changes in fisheries science. These include growing concerns about the environmental impacts of fisheries, the role of ecological interactions in determining population dynamics, and the incorporation of uncertainty and precautionary principles into management advice. The book draws upon examples from tropical, temperate and polar environments, and provides readers with a broad understanding of the biological, economic and social aspects of fisheries ecology and the interplay between them. As well as covering 'classical' fisheries science, the book focuses on contemporary issues such as industrial fishing, poverty and conflict in fishing communities, marine reserves, the effects of fishing on coral reefs and by-catches of mammals, seabirds and reptiles. The book is primarily written for students of fisheries science and marine ecology, but should also appeal to practising fisheries scientists and those interested in conservation and the impacts of humans on the marine environment."--BOOK JACKET.},
booktitle = {Marine fisheries ecology},
groups = {Fish Analysis},
keywords = {Ecologie marine.},
language = {eng},
}
@Article{JERALDS.2008,
author = {JERALD S. AULT and STEVEN G. SMITH and JIANGANG LUO and MARK E. MONACO and RICHARD S. APPELDOORN},
journal = {Environmental Conservation},
title = {Length-based assessment of sustainability benchmarks for coral reef fishes in Puerto Rico},
year = {2008},
month = {sep},
number = {3},
pages = {221--231},
volume = {35},
doi = {10.1017/s0376892908005043},
groups = {Ecology},
publisher = {Cambridge University Press ({CUP})},
}
@Article{Knausgaard2021,
author = {Kristian Muri Knausg{\aa}rd and Arne Wiklund and Tonje Knutsen S{\o}rdalen and Kim Tallaksen Halvorsen and Alf Ring Kleiven and Lei Jiao and Morten Goodwin},
journal = {Applied Intelligence},
title = {Temperate fish detection and classification: a deep learning based approach},
year = {2021},
month = {mar},
number = {6},
pages = {6988--7001},
volume = {52},
doi = {10.1007/s10489-020-02154-9},
groups = {Fish Analysis},
publisher = {Springer Science and Business Media {LLC}},
}
@InProceedings{Kunz2008,
author = {Clayton Kunz and Hanumant Singh},
booktitle = {{OCEANS} 2008},
title = {Hemispherical refraction and camera calibration in underwater vision},
year = {2008},
publisher = {{IEEE}},
doi = {10.1109/oceans.2008.5151967},
groups = {Camera Calibration},
}
@Article{Lavest2003,
author = {J.M. Lavest and G. Rives and J.T. Laprest�},
journal = {Machine Vision and Applications},
title = {Dry camera calibration for underwater applications},
year = {2003},
month = {mar},
number = {5-6},
pages = {245--253},
volume = {13},
doi = {10.1007/s00138-002-0112-z},
groups = {Camera Calibration},
publisher = {Springer Science and Business Media {LLC}},
}
@PhdThesis{Lee2017,
author = {Lee, Yeejin},
school = {University of California, San Diego},
title = {Analysis of Raw Sensor Data with Applications in Image Processing and Compression},
year = {2017},
type = {phdthesis},
abstract = {In the last few years, there has been a drastic improvement in the development of sensor technology that increases spatial resolution, dynamic range, and low-light sensitivity of digital cameras. Although the image processing techniques in a digital camera processing pipeline have been well studied, they face many difficulties in processing raw data of high resolution as well as raw data captured in the low light environment.
The key to maximizing the quality of the final output images is to understand the captured raw sensor data in the proper context of a camera processing pipeline. In this dissertation, we analyze the image acquisition model and develop new image processing techniques that leverage the acquisition model. This work advances computer vision and data communication by focusing on the role that the camera processing pipeline plays. Particularly, we discuss image enhancement in low-light condition and image compression problems in the context of the image pipeline.
To the best of our knowledge, this is the first study connecting image enhancement and compression algorithms to the context of an actual image acquisition process. Most prior image enhancement and image compression for raw sensor data used images already processed by camera processing pipelines for experimental verification while we verify the proposed image processing technique using actual sensor data.},
groups = {Image Processing},
url = {https://escholarship.org/uc/item/4063t2j4},
}
@Book{Leibe,
author = {Leibe, Bastian and Matas, Jiri and Sebe, Nicu and Welling, Max},
publisher = {Springer},
title = {Computer Vision – ECCV 2016 14th European Conference, Amsterdam, The Netherlands, October 11–14, 2016, Proceedings, Part I},
isbn = {9783319464473},
groups = {Image Processing},
pages = {902},
subtitle = {14th European Conference, Amsterdam, The Netherlands, October 11–14, 2016, Proceedings, Part I},
}
@Article{Liang2021,
author = {Zhengfa Liang and Yulan Guo and Yiliu Feng and Wei Chen and Linbo Qiao and Li Zhou and Jianfeng Zhang and Hengzhu Liu},
journal = {{IEEE} Transactions on Pattern Analysis and Machine Intelligence},
title = {Stereo Matching Using Multi-Level Cost Volume and Multi-Scale Feature Constancy},
year = {2021},
month = {jan},
number = {1},
pages = {300--315},
volume = {43},
doi = {10.1109/tpami.2019.2928550},
groups = {Stereo Camera},
publisher = {Institute of Electrical and Electronics Engineers ({IEEE})},
}
@Article{Lowe2004,
author = {David G. Lowe},
journal = {International Journal of Computer Vision},
title = {Distinctive Image Features from Scale-Invariant Keypoints},
year = {2004},
month = {nov},
number = {2},
pages = {91--110},
volume = {60},
doi = {10.1023/b:visi.0000029664.99615.94},
groups = {Image Processing},
publisher = {Springer Science and Business Media {LLC}},
}
@InProceedings{Lu2019,
author = {Shuigen Lu and Hesheng Yin and Yunliang Zhu and Xi Yang and Shaomiao Li and Bo Huang},
booktitle = {Proceedings of the 2019 4th International Conference on Robotics, Control and Automation},
title = {Binocular Stereo Matching Based on Convolutional Neural Networks},
year = {2019},
month = {jul},
publisher = {{ACM}},
doi = {10.1145/3351180.3351189},
groups = {Stereo Camera},
}
@Article{Luczynski2017,
author = {Tomasz {\L}uczy{\'{n}}ski and Max Pfingsthorn and Andreas Birk},
journal = {Ocean Engineering},
title = {The Pinax-model for accurate and efficient refraction correction of underwater cameras in flat-pane housings},
year = {2017},
month = {mar},
pages = {9--22},
volume = {133},
doi = {10.1016/j.oceaneng.2017.01.029},
groups = {Optics},
publisher = {Elsevier {BV}},
}
@PhdThesis{Luczynski2018,
author = {Tomasz Łuczyński},
title = {An Intelligent and Robust System for Underwater Vision},
year = {2018},
groups = {Optics},
url = {http://nbn-resolving.org/urn:nbn:de:gbv:579-opus-1007798},
}
@Article{Mallet2014,
author = {Delphine Mallet and Dominique Pelletier},
journal = {Fisheries Research},
title = {Underwater video techniques for observing coastal marine biodiversity: A review of sixty years of publications (1952-2012)},
year = {2014},
issn = {0165-7836},
pages = {44-62},
volume = {154},
abstract = {Underwater video techniques are increasingly used in marine ecology studies. Technological progress regarding video cameras, sensors (such as sounders), battery life and information storage make these techniques now accessible to a majority of users. However, diver-based underwater visual censuses, and catch and effort data, remain the most commonly used for observing coastal biodiversity and species. In this paper, we review the underwater video techniques that have been developed since the 1950s to investigate and/or monitor coastal biodiversity. Techniques such as remote underwater video, whether baited or not, diver-operated video and towed video are described, along with corresponding applications in the field. We then analyse the complementary of techniques, first from studies comparing video techniques with other observation techniques, whether video-based or not, and second by documenting their respective cost efficiencies. These findings are discussed with respect to current challenges in monitoring and investigating coastal biodiversity. Video should be more often considered and used, either in addition to or as an alternative to diver-based, fishing and acoustic techniques, as it may be particularly suited for monitoring coastal biodiversity in a variety of areas and on larger scales than hitherto and within an ecosystem-based approach to management and conservation.},
doi = {https://doi.org/10.1016/j.fishres.2014.01.019},
groups = {Fish Analysis, Stereo Camera},
keywords = {Underwater video, Monitoring, Coastal biodiversity, Fish, Habitat},
url = {https://www.sciencedirect.com/science/article/pii/S0165783614000356},
}
@Article{Marchand2016,
author = {Marchand, Eric and Uchiyama, Hideaki and Spindler, Fabien},
journal = {{IEEE Transactions on Visualization and Computer Graphics}},
title = {{Pose Estimation for Augmented Reality: A Hands-On Survey}},
year = {2016},
month = Dec,
number = {12},
pages = {2633 - 2651},
volume = {22},
doi = {10.1109/TVCG.2015.2513408},
groups = {Camera Calibration},
hal_id = {hal-01246370},
hal_version = {v1},
keywords = {Index Terms-Survey ; augmented reality ; vision-based camera localization ; pose estimation ; PnP ; SLAM ; motion estimation ; homography ; keypoint matching ; code examples},
pdf = {https://inria.hal.science/hal-01246370/file/survey-ieee-v2.pdf},
publisher = {{Institute of Electrical and Electronics Engineers}},
url = {https://inria.hal.science/hal-01246370},
}
@InProceedings{Mei2021,
author = {Jie Mei and Jenq-Neng Hwang and Suzanne Romain and Craig Rose and Braden Moore and Kelsey Magrane},
booktitle = {{ICASSP} 2021 - 2021 {IEEE} International Conference on Acoustics, Speech and Signal Processing ({ICASSP})},
title = {Absolute 3d Pose Estimation and Length Measurement of Severely Deformed Fish from Monocular Videos in Longline Fishing},
year = {2021},
month = {jun},
publisher = {{IEEE}},
doi = {10.1109/icassp39728.2021.9414803},
groups = {Fish Analysis},
}
@Article{Menna2016,
author = {Fabio Menna and Erica Nocerino and Francesco Fassi and Fabio Remondino},
journal = {Sensors},
title = {Geometric and Optic Characterization of a Hemispherical Dome Port for Underwater Photogrammetry},
year = {2016},
month = {jan},
number = {1},
pages = {48},
volume = {16},
doi = {10.3390/s16010048},
groups = {Optics},
publisher = {{MDPI} {AG}},
}
@Article{Monkman2019,
author = {Monkman, Graham G and Hyder, Kieran and Kaiser, Michel J and Vidal, Franck P},
journal = {ICES Journal of Marine Science},
title = {{Accurate estimation of fish length in single camera photogrammetry with a fiducial marker}},
year = {2019},
issn = {1054-3139},
month = {03},
number = {6},
pages = {2245-2254},
volume = {77},
doi = {10.1093/icesjms/fsz030},
eprint = {https://academic.oup.com/icesjms/article-pdf/77/6/2245/38496874/fsz030.pdf},
groups = {Fish Analysis, Laser Rangefinder},
url = {https://doi.org/10.1093/icesjms/fsz030},
}
@Article{Mora2013,
author = {Camilo Mora and Chih-Lin Wei and Audrey Rollo and Teresa Amaro and Amy R. Baco and David Billett and Laurent Bopp and Qi Chen and Mark Collier and Roberto Danovaro and Andrew J. Gooday and Benjamin M. Grupe and Paul R. Halloran and Jeroen Ingels and Daniel O. B. Jones and Lisa A. Levin and Hideyuki Nakano and Karl Norling and Eva Ramirez-Llodra and Michael Rex and Henry A. Ruhl and Craig R. Smith and Andrew K. Sweetman and Andrew R. Thurber and Jerry F. Tjiputra and Paolo Usseglio and Les Watling and Tongwen Wu and Moriaki Yasuhara},
journal = {{PLoS} Biology},
title = {Biotic and Human Vulnerability to Projected Changes in Ocean Biogeochemistry over the 21st Century},
year = {2013},
month = {oct},
number = {10},
pages = {e1001682},
volume = {11},
doi = {10.1371/journal.pbio.1001682},
editor = {Georgina M. Mace},
groups = {Ecology},
publisher = {Public Library of Science ({PLoS})},
}
@Article{Mueller2006,
author = {Robert P. Mueller and Richard S. Brown and Haakon Hop and Larry Moulton},
journal = {Reviews in Fish Biology and Fisheries},
title = {Video and acoustic camera techniques for studying fish under ice: a review and comparison},
year = {2006},
month = {sep},
number = {2},
pages = {213--226},
volume = {16},
doi = {10.1007/s11160-006-9011-0},
groups = {Acoustic Camera},
publisher = {Springer Science and Business Media {LLC}},
}
@Article{Myers2003,
author = {Ransom A. Myers and Boris Worm},
journal = {Nature},
title = {Rapid worldwide depletion of predatory fish communities},
year = {2003},
month = {may},
number = {6937},
pages = {280--283},
volume = {423},
doi = {10.1038/nature01610},
groups = {Ecology},
publisher = {Springer Science and Business Media {LLC}},
}
@Article{Nguyen1995,
author = {Nguyen, Hoa G and Blackburn, Michael R},
journal = {Technical Document},
title = {A simple method for range finding via laser triangulation},
year = {1995},
volume = {2734},
groups = {Laser Rangefinder},
}
@Manual{OrbittyGPIO,
title = {Orbitty Carrier and Jetson TX2: GPIO pins - Product support / balenaOS},
groups = {RealSense System},
url = {https://forums.balena.io/t/orbitty-carrier-and-jetson-tx2-gpio-pins/5306},
}
@Manual{OrbittyManual,
title = {Orbitty Carrier for NVIDIA® Jetson™ TX2/TX2i},
groups = {RealSense System},
url = {http://connecttech.com/pdf/CTIM-ASG003_Manual.pdf},
}
@InProceedings{Parthasarathy1982,
author = {S. Parthasarathy and J. Birk and J. Dessimoz},
booktitle = {Robot Vision},
title = {{Laser Rangefinder For Robot Control And Inspection}},
year = {1982},
editor = {Azriel Rosenfeld},
organization = {International Society for Optics and Photonics},
pages = {2 -- 11},
publisher = {SPIE},
volume = {0336},
doi = {10.1117/12.933605},
groups = {Laser Rangefinder},
url = {https://doi.org/10.1117/12.933605},
}
@MastersThesis{Paxson2022,
author = {Patrick Richard Paxson},
school = {University of California San Diego},
title = {Systems Design of Underwater 3-D Camera Modules},
year = {2022},
type = {mathesis},
abstract = {Methods for measuring fish populations are incredibly outdated. Even with rapid improvements in battery technology, compute power and camera systems in the last few years, the most popular techniques for counting fish and measuring their lengths employ humans. In this paper, I present FishSense as an alternative. By utilizing a compact 3-D camera, powerful embedded compute system, and easily-available off-the-shelf parts for assembly, the FishSense modules are sleek, cost-effective and modular systems able to slot into a wide variety of applications. By capturing both depth and color image data, these modules are able to measure the length of individual fish as well, offering an effective non-invasive solution to length \& biomass estimation. The hardware design allows for a high degree of modularity, with options for longer battery life, better performance, and applications in longer-term passive monitoring. The FishSense handheld model has been rigorously tested in several deployments, ranging from a small testing pool with toy fish, to a 70,000 gallon aquarium tank, to an active aquaculture center, with more planned in upcoming months, and preliminary software results from these deployments demonstrate the efficacy of the FishSense modules at measuring fish populations and sizes.},
groups = {RealSense System},
url = {https://escholarship.org/uc/item/3221z5rm},
}
@Article{Pet2005,
author = {Jos S. Pet and Peter J. Mous and Andreas H. Muljadi and Yvonne J. Sadovy and Lyle Squire},
journal = {Environmental Biology of Fishes},
title = {Aggregations of Plectropomus areolatus and Epinephelus fuscoguttatus (groupers, Serranidae) in the Komodo National Park, Indonesia: Monitoring and Implications for Management},
year = {2005},
month = {oct},
number = {2},
pages = {209--218},
volume = {74},
doi = {10.1007/s10641-005-8528-8},
groups = {Fish Analysis, Ecology},
publisher = {Springer Science and Business Media {LLC}},
}
@Article{Pignatelli2010,
author = {Vincenzo Pignatelli and Conor Champ and Justin Marshall and Misha Vorobyev},
journal = {Biology Letters},
title = {Double cones are used for colour discrimination in the reef fish,Rhinecanthus aculeatus},
year = {2010},
month = {feb},
number = {4},
pages = {537--539},
volume = {6},
doi = {10.1098/rsbl.2009.1010},
groups = {Ecology},
publisher = {The Royal Society},
}
@Article{Pontecorvo1980,
author = {Giulio Pontecorvo and Maurice Wilkinson and Ronald Anderson and Michael Holdowsky},
journal = {Science},
title = {Contribution of the Ocean Sector to the United States Economy},
year = {1980},
month = {may},
number = {4447},
pages = {1000--1006},
volume = {208},
doi = {10.1126/science.208.4447.1000},
groups = {Ecology},
publisher = {American Association for the Advancement of Science ({AAAS})},
}
@Book{RafaelC.Gonzalez2018,
author = {Rafael C. Gonzalez, Richard E. Woods},
publisher = {Pearson},
title = {Digital Image Processing},
year = {2018},
isbn = {978-0-13-168728-8},
groups = {Image Processing, Fish Analysis},
}
@Article{Raistrick2023,
author = {Raistrick, Alexander and Lipson, Lahav and Ma, Zeyu and Mei, Lingjie and Wang, Mingzhe and Zuo, Yiming and Kayan, Karhan and Wen, Hongyu and Han, Beining and Wang, Yihan and Newell, Alejandro and Law, Hei and Goyal, Ankit and Yang, Kaiyu and Deng, Jia},
title = {Infinite Photorealistic Worlds using Procedural Generation},
year = {2023},
month = jun,
abstract = {We introduce Infinigen, a procedural generator of photorealistic 3D scenes of the natural world. Infinigen is entirely procedural: every asset, from shape to texture, is generated from scratch via randomized mathematical rules, using no external source and allowing infinite variation and composition. Infinigen offers broad coverage of objects and scenes in the natural world including plants, animals, terrains, and natural phenomena such as fire, cloud, rain, and snow. Infinigen can be used to generate unlimited, diverse training data for a wide range of computer vision tasks including object detection, semantic segmentation, optical flow, and 3D reconstruction. We expect Infinigen to be a useful resource for computer vision research and beyond. Please visit https://infinigen.org for videos, code and pre-generated data.},
archiveprefix = {arXiv},
copyright = {arXiv.org perpetual, non-exclusive license},
doi = {10.48550/ARXIV.2306.09310},
eprint = {2306.09310},
file = {:http\://arxiv.org/pdf/2306.09310v2:PDF},
keywords = {Computer Vision and Pattern Recognition (cs.CV), FOS: Computer and information sciences},
primaryclass = {cs.CV},
publisher = {arXiv},
}
@Article{Ramsay2009,
author = {Ramsay, JM and Watral, V and Schreck, CB and Kent, ML},
journal = {Journal of Fish Diseases},
title = {Husbandry stress exacerbates mycobacterial infections in adult zebrafish, Danio rerio (Hamilton)},
year = {2009},
number = {11},
pages = {931--941},
volume = {32},
groups = {Fish Analysis},
publisher = {Wiley Online Library},
}
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author = {Polly S. Rankin and Robert W. Hannah and Matthew T.O. Blume and Timothy J. Miller-Morgan and Jerry R. Heidel},
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year = {2017},
month = {feb},
pages = {258--268},
volume = {186},
doi = {10.1016/j.fishres.2016.09.004},
groups = {Ecology},
publisher = {Elsevier {BV}},
}
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author = {EH Raymond and EA Widder},
journal = {Marine Ecology Progress Series},
title = {Behavioral responses of two deep-sea fish species to red, far-red, and white light},
year = {2007},
month = {nov},
pages = {291--298},
volume = {350},
doi = {10.3354/meps07196},
groups = {Ecology},
publisher = {Inter-Research Science Center},
}
@Article{Rice2011,
author = {Jake C. Rice and Serge M. Garcia},
journal = {{ICES} Journal of Marine Science},
title = {Fisheries, food security, climate change, and biodiversity: characteristics of the sector and perspectives on emerging issues},
year = {2011},
month = {apr},
number = {6},
pages = {1343--1353},
volume = {68},
doi = {10.1093/icesjms/fsr041},
groups = {Ecology},
publisher = {Oxford University Press ({OUP})},
}
@Article{Rizzo2016,
author = {Austin A. Rizzo and Stuart A. Welsh and Patricia A. Thompson},
journal = {North American Journal of Fisheries Management},
title = {A Paired-Laser Photogrammetric Method for In Situ Length Measurement of Benthic Fishes},
year = {2016},
month = {dec},
number = {1},
pages = {16--22},
volume = {37},
doi = {10.1080/02755947.2016.1235632},
groups = {Laser Rangefinder},
publisher = {Wiley},
}
@Article{Rohner2011,
author = {Rohner, C. A. and Richardson, A. J. and Marshall, A. D. and Weeks, S. J. and Pierce, S. J.},
journal = {Journal of Fish Biology},
title = {How large is the world's largest fish? Measuring whale sharks Rhincodon typus with laser photogrammetry},
year = {2011},
number = {1},
pages = {378-385},
volume = {78},
doi = {https://doi.org/10.1111/j.1095-8649.2010.02861.x},
eprint = {https://onlinelibrary.wiley.com/doi/pdf/10.1111/j.1095-8649.2010.02861.x},
groups = {Fish Analysis},
keywords = {demography, growth, size, visual estimate},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/j.1095-8649.2010.02861.x},
}
@Article{Schmid2000,