Publications

112 entries « 1 of 3 »

2021

Merz, Ewa; Kozakiewicz, Thea; Reyes, Marta; Ebi, Christian; Isles, Peter; Baity-Jesi, Marco; Roberts, Paul; Jaffe, Jules S.; Dennis, Stuart R.; Hardeman, Thomas; Stevens, Nelson; Lorimer, Tom; Pomati, Francesco

Underwater dual-magnification imaging for automated lake plankton monitoring Journal Article Forthcoming

In: Water Research, 203 (117524), Forthcoming.

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Ronen, Roi; Attias, Yacov; Schechner, Yoay Y.; Jaffe, Jules S.; Orenstein, Eric C.

Plankton reconstruction through robust statistical optical tomography Journal Article

In: Journal of the Optical Society of America A, 38 (9), pp. 1320-1331, 2021.

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Pagniello, Camille M. L. S.; Butler, Jack; Rosen, Annie; Sherwood, Addison; Roberts, Paul L. D.; Parnell, P. Edward; Jaffe, Jules S.; Sirovic, Ana

An Optical Imaging System for Capturing Images in Low-Light Aquatic Habitats Using Only Ambient Light Journal Article

In: Oceanography Magazine, 2021.

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Lertvilai, Pichaya; Roberts, Paul L. D.; Jaffe, Jules S.

In Situ Underwater Average Flow Velocity Estimation Using a Low-Cost Video Velocimeter Journal Article

In: Journal of Atmospheric and Oceanic Technology, 38 (6), pp. 1143-1156, 2021.

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2020

Garwood, Jessica C.; Lucas, Andrew J.; Naughton, Perry; Roberts, Paul L. D.; Jaffe, Jules S; deGelleke, Laura; Franks, Peter J. S.

Larval cross-shore transport estimated from internal waves with a mean flow: the effects of larval vertical position and depth regulation. Journal Article

In: Limnology and Oceanography, 2020.

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Orenstein, Eric C.; Ratelle, Devin; Briseño-Avena, Christian; Carter, Melissa L; Franks, Peter J. S.; Jaffe, Jules S.; Roberts, Paul L. D.

The Scripps Plankton Camera system: A framework and platform for in situ microscopy Journal Article

In: Limnology and Oceanography: Methods, 2020.

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Briseño-Avena, Christian; Prairie, Jennifer C.; Franks, Peter J. S.; Jaffe, Jules S.

Comparing Vertical Distributions of Chl-a Fluorescence, Marine Snow, and Taxon-Specific Zooplankton in Relation to Density Using High Resolution Optical Measurements Journal Article

In: Frontiers in Marine Science, 2020.

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Lertvilai, Pichaya

The In situ Plankton Assemblage eXplorer (IPAX): An inexpensive underwater imaging system for zooplankton study Journal Article

In: Methods in Ecology and Evolution, 2020.

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Kenitz, Kasia M; Orenstein, Eric C.; Roberts, Paul L D; Franks, Peter J S; Jaffe, Jules S; Carter, Melissa L; Barton, Andrew D

Environmental drivers of population variability in colony‐forming marine diatoms Journal Article

In: Limnology and Oceanography, 2020.

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Campbell, Robert W; Roberts, Paul L D; Jaffe, Jules S

The Prince William Sound Plankton Camera: a profiling in situ observatory of plankton and particulates Journal Article

In: ICES Journal of Marine Science, 77 (4), pp. 1440-1455, 2020.

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Garwood, Jessica C.; Lucas, Andrew J.; Naughton, Perry; Alford, Matthew H.; Roberts, Paul L. D.; Jaffe, Jules S.; Franks, Peter J. S.

A novel cross‐shore transport mechanism revealed by subsurface, robotic larval mimics: Internal wave deformation of the background velocity field Journal Article

In: Limnology and Oceanography, 65 (7), pp. 1456-1470, 2020.

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2019

Franks, Peter J. S.; Garwood, Jessica C.; Ouimet, Michael; Cortes, Jorge; Musgrave, Ruth C.; Lucas, Andrew J.

Stokes drift of plankton in linear internal waves: Cross-shore transport of neutrally buoyant and depth-keeping organisms Journal Article

In: Limnology and Oceanography, (WOS:000501665500001), 2019, ISBN: 0024-3590.

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Lombard, Fabien; Boss, Emmanuel; Waite, Anya M.; Vogt, Meike; Uitz, Julia; Stemmann, Lars; Sosik, Heidi M.; Schulz, Jan; Romagnan, Jean-Baptiste; Picheral, Marc; Pearlman, Jay; Ohman, Mark D.; Niehoff, Barbara; Möller, Klas O.; Miloslavich, Patricia; Lara-Lpez, Ana; Kudela, Raphael; Lopes, Rubens M.; Kiko, Rainer; Karp-Boss, Lee; Jaffe, Jules S.; Iversen, Morten H.; Irisson, Jean-Olivier; Fennel, Katja; Hauss, Helena; Guidi, Lionel; Gorsky, Gaby; Giering, Sarah L. C.; Gaube, Peter; Gallager, Scott; Dubelaar, George; Cowen, Robert K.; Carlotti, François; Briseño-Avena, Christian; Berline, Léo; Benoit-Bird, Kelly; Bax, Nicholas; Batten, Sonia; Ayata, Sakina Dorothée; Artigas, Luis Felipe; Appeltans, Ward

Globally Consistent Quantitative Observations of Planktonic Ecosystems Journal Article

In: Frontiers in Marine Science, 6 , pp. 196, 2019, ISSN: 2296-7745 .

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2018

Naughton, Perry; Roux, Philippe; Schurgers, Curt; Kastner, Ryan; Jaffe, Jules S; Roberts, Paul L D

Self-localization of a mobile swarm using noise correlations with local sources of opportunity Journal Article

In: Journal of the Acoustical Society of America, 144 (WOS:000454102300035), pp. 2811-2823, 2018, ISBN: 0001-4966, (Technical Area Pick for Signal Processing of the Acoustical Society of America in 2019).

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2017

Naughton, Perry; Roux, Philippe; Schurgers, Curt; Kastner, Ryan; Jaffe, Jules S.; Roberts, Paul L. D.

Self-localization of a deforming swarm of underwater vehicles using impulsive sound sources of opportunity Journal Article

In: IEEE Access, 6 (INSPEC Accession Number: 16881600), pp. 1635-1646, 2017.

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Briseño-Avena, Christian; Franks, Peter J S; Roberts, Paul L D; Jaffe, Jules S

A diverse group of echogenic particles observed with a broadband, high frequency echosounder Journal Article

In: ICES Journal of Marine Science, 75 , pp. 471-482, 2017.

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Orenstein, Eric C.; Beijbom, Oscar

Transfer learning and deep feature extraction for planktonic image data sets Inproceedings

In: Winter Conference on Applications of Computer Vision, pp. 1082-1088, IEEE 2017.

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Jaffe, Jules S; Franks, Peter J S; Roberts, Paul L D; Mirza, Diba; Schurgers, Curt; Kastner, Ryan; Boch, Adrien

A swarm of autonomous miniature underwater robot drifters for exploring submesoscale ocean dynamics Journal Article

In: Nature Communications, 8 (14189), 2017, (Article).

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2016

Naughton, Perry; Roux, Philippe; Yeakle, Riley; Schurgers, Curt; Kastner, Ryan; Jaffe, Jules S.; Roberts, Paul L. D.

Ambient noise correlations on a mobile, deformable array Journal Article

In: The Journal of the Acoustical Society of America, 140 (6), pp. 4260-4270, 2016.

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Liao, Ran; Roberts, Paul L. D.; Jaffe, Jules S.

Sizing submicron particles from optical scattering data collected with oblique incidence illumination Journal Article

In: Appl. Opt., 55 (33), pp. 9440–9449, 2016.

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Mullen, Andrew D.; Treibitz, Tali; Roberts, Paul L. D.; Kelly, Emily L. A.; Horwitz, Rael; Smith, Jennifer E.; Jaffe, Jules S.

Underwater microscopy for in situ studies of benthic ecosystems Journal Article

In: Nat Commun, 7 , 2016.

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Orenstein, Eric C.; Haag, Justin M.; Gagnon, Yakir L.; Jaffe, Jules S.

Automated classification of camouflaging cuttlefish Journal Article

In: Methods in Oceanography, pp. -, 2016, ISSN: 2211-1220.

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Jaffe, Jules S.

To sea and to see: That is the answer Journal Article

In: Methods in Oceanography, pp. -, 2016, ISSN: 2211-1220.

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2015

Jaffe, J. S.

Underwater Optical Imaging: The Past, the Present, and the Prospects Journal Article

In: Oceanic Engineering, IEEE Journal of, 40 (3), pp. 683-700, 2015, ISSN: 0364-9059.

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Treibitz, Tali; Neal, Benjamin P.; Kline, David I.; Beijbom, Oscar; Roberts, Paul L. D.; Mitchell, B. Greg; Kriegman, David

Wide Field-of-View Fluorescence Imaging of Coral Reefs Journal Article

In: Scientific Reports, 5 , pp. 7694 EP -, 2015, (Article).

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Briseño-Avena, Christian; Roberts, Paul L. D.; Franks, Peter J. S.; Jaffe, Jules S.

ZOOPS- O2: A broadband echosounder with coordinated stereo optical imaging for observing plankton in situ Journal Article

In: Methods in Oceanography, 12 , pp. 36 - 54, 2015, ISSN: 2211-1220.

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Pepper, Rachel E; Jaffe, Jules S; Variano, Evan; Koehl, MAR

Zooplankton in flowing water near benthic communities encounter rapidly fluctuating velocity gradients and accelerations Journal Article

In: Marine Biology, 162 (10), pp. 1939–1954, 2015.

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A., Darcy A.; Yakir, Gagnon; R., Wheeler Benjamin; Sönke, Johnsen; Taniguchi, Jaffe Jules S.

Cuttlefish Sepia officinalis Preferentially Respond to Bottom Rather than Side Stimuli When Not Allowed Adjacent to Tank Walls Journal Article

In: PLoS ONE, 10 (10), pp. 1-18, 2015.

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2014

Haag, Justin M; Roberts, Paul L. D.; Papen, George C.; Jaffe, Jules S.; Li, Linhai; Stramski, Dariusz

Deep-sea low-light radiometer system Journal Article

In: Opt. Express, 22 (24), pp. 30074–30091, 2014.

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Yi, Jinwang; Mirza, Diba; Kastner, Ryan; Schurgers, Curt; Roberts, Paul; Jaffe, Jules

ToA-TS: Time of arrival based joint time synchronization and tracking for mobile underwater systems Journal Article

In: Ad Hoc Networks, 34 (2015), pp. 211 - 223, 2014.

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2013

Haag, Justin M; Jaffe, Jules S.; Sweeney, Alison M

Measurement system for marine animal reflectance functions Journal Article

In: Optics Express, 21 , pp. 3603-3616, 2013.

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Jaffe, J. S.; Franks, P. J. S.; Briseno, C.; Roberts, P. L. D.; Laxton, B.

Advances in underwater fluorometry, from bulk fluorescence to planar laser imaging of individuals Book Chapter

In: Subsea Optics and Imaging, Woodhead Publishing Limited, Cambridge, Woodhead Publishing Limited, Cambridge, 2013.

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Berdalet, E.; McManus, M. A.; Ross, O. N.; Burchard, H.; Chavez, F. P.; Jaffe, J. S.; Jenkinson, I. R.; Kudela, R.; Lips, I.; Lips, U.; Lucas, A.; Rivas, D.; la Torre, M. C. Ruiz-de; Ryan, J.; Sullivan, J. M.; Yamazaki, H.

Understanding harmful algae in stratified systems: Review of progress and future directions Journal Article

In: Deep Sea Research Part II: Topical Studies in Oceanography, 101 , pp. 4-20, 2013, ISSN: 0967-0645.

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2012

Haag, Justin M; Sweeney, Alison M; Jaffe, Jules S.

Measurement of Marine Animal Reflectance Functions Proceeding

Glasgow, Scotland, UK, 2012.

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Haag, Justin M; Sweeney, Alison M; Jaffe, Jules S.

Measurement System for Obtaining Marine Animal Reflectance Functions Proceeding

Glasgow, Scotland, UK, 2012.

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2011

Roberts, Paul L. D.; Steinbuck, J. V.; Jaffe, Jules S.; Horner-Devine, A. R.; Franks, Peter J. S.; Simonet, F.

Estimation of In Situ, Three-Dimensional Particle Distributions from a Stereo Laser Imaging Profiler Journal Article

In: IEEE Journal of Oceanic Engineering, 36 , pp. 586 - 601, 2011.

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Jaffe, Jules S.; Roberts, Paul L. D.

Applying diffraction theory to measure acoustically the in-situ orientation of marine animals Journal Article

In: Acoustics Today, 7 (3), pp. 36-37, 2011.

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Jaffe, Jules S.; Roberts, Paul L. D.

Estimating fish orientation from broadband, limited-angle, multi-view, acoustic reflections Journal Article

In: Journal of the Acoustical Society of America, pp. 670-680, 2011.

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Roberts, Paul L. D.; Jaffe, Jules S.; Trivedi, M. M.

Multiview, Broadband Acoustic Classification of Marine Fish: A Machine Learning Framework and Comparative Analysis Journal Article

In: IEEE Journal of Oceanic Engineering, 36 , pp. 90-104, 2011.

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Prairie, Jennifer C.; Franks, Peter J. S.; Jaffe, Jules S.; Doubell, Mark J.; Yamazaki, Hidekatsu

Physical and biological controls of vertical gradients in phytoplankton Journal Article

In: Limnology and Oceanography, 2011.

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Jaffe, Jules S.; Roberts, Paul L. D.

Acoustic reflections on marine populations Journal Article

In: Physics Today, 64 , pp. 76, 2011.

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2010

Prairie, Jennifer C.; Franks, Peter J. S.; Jaffe, Jules S.

Cryptic peaks: Invisible vertical structure in fluorescent particles revealed using a planar laser imaginer fluorometer Journal Article

In: Limnology and Oceanography, 55(5) , 2010.

BibTeX

Steinbuck, J. V.; Roberts, Paul L. D.; Troy, C. D.; Horner-Devine, A. R.; Simonet, F.; Uhlman, A.; Jaffe, Jules S.; Franks, Peter J. S.; Monismith, S. G.

An autonomous open-ocean stereoscopic PIV profiler Journal Article

In: Journal of Atmospheric and Oceanic Technology, 27 , 2010.

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Jaffe, Jules S.

Enhanced extended range underwater imaging via structured illumination Journal Article

In: Optics Express, 18 , 2010.

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Li, Wei; Jaffe, Jules S.

Sizing homogeneous spherical particles from intensity-only angular scatter Journal Article

In: Journal of the Optical Society of America, 2010.

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2009

Roberts, Paul L. D.

Multi-view, broadband, acoustic classification of marine animals PhD Thesis

University of California, San Diego, 2009, ISBN: 9781109125634.

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Roberts, Paul L. D.; Jaffe, Jules S.

Multi-view sizing and classification of individual fish Proceeding

Monterey, CA, 2009.

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Karak"oyl"u, Erdem M.; Franks, Peter J. S.; Tanaka, Yuji; Roberts, Paul L. D.; Jaffe, Jules S.

Copepod feeding quantified by planar laser imaging of gut fluorescence Journal Article

In: Limnology and Oceanography: Methods, 7 , pp. 33-41, 2009.

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Roberts, Paul L. D.; Jaffe, Jules S.; Trivedi, M. M.

A Multiview, Multimodal Fusion Framework for Classifying Small Marine Animals with an Opto-Acoustic Imaging System Proceeding

Snowbird, Utah, 2009.

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2008

Roberts, Paul L. D.; Jaffe, Jules S.

Classification of live, untethered zooplankton from observations of multiple-angle scatter Journal Article

In: Journal of the Acoustical Society of America, 124 , pp. 796-802, 2008.

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112 entries « 1 of 3 »