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Project Outputs

Outputs from the DECAF project

Journal Articles

Review papers

Towards the end of the DECAF project, we wrote two review papers summarizing the state of the field at the time.  The first is short and fairly non-technical, aimed at an acoustical audience; the second is longer and more complete, aimed at biologists wishing to implement the methods.

  • Thomas, L. and T.A. Marques. 2012. Passive acoustic monitoring for estimating animal density.  Acoustics Today 8(3): 35-44.
  • Marques, T.A., L. Thomas, S. Martin, D. Mellinger, J. Ward, D. Moretti, D. Harris and P. Tyack. 2013.  Estimating animal population density using passive acoustics. Biological Reviews 88: 287-309.

Primary research papers

These are the papers where we describe the novel research we undertook as part of the DECAF project.

  • Martin, S. W., T. A. Marques, L. Thomas, R. P. Morrissey, S. Jarvis, N. DiMarzio, D. Moretti and D. K. Mellinger. 2013. Estimating minke whale (Balaenoptera acutorostrata) boing sound density using passive acoustic sensors. Marine Mammal Science 29: 142-158.
  • Marques, T. A., Thomas, L., Martin, S. W., Mellinger, D. K., Jarvis, S., Morrissey, R. P., Ciminello, C., DiMarzio, N. 2012. Spatially explicit capture recapture methods to estimate minke whale abundance from data collected at bottom mounted hydrophones. Journal of Ornithology. 152 (Suppl 2):S445–S455
        • Ward, J., L. Thomas, S. Jarvis, N. DiMarzio, D. Moretti, T. A. Marques, C. Dunn, D. Claridge, E. Hartvig and P. Tyack. 2012. Passive Acoustic Density Estimation of Sperm Whales in the Tongue of the Ocean, Bahamas. Marine Mammal Science 28: E444-E455.
        • Baggenstoss, P.M. 2011. An Algorithm for the Localization of Multiple Interfering Sperm Whales Using Multi-Sensor Time Difference of Arrival. Journal of the Acoustical Society of America. 130: 102-112.
        • Baggenstoss, P.M. 2011. Separation of sperm whale click trains for multipath rejection. Journal of the Acoustical Society of America. 129: 3598-3609.
        • Küsel, E.T., D.K. Mellinger, L. Thomas, T.A. Marques, D.J. Moretti, and J. Ward. 2011. Cetacean population density estimation from single fixed sensors using passive acoustics. Journal of the Acoustical Society of America 129: 3610-3622.
        • Marques, T.A., L. Thomas and R.A. Royle. 2011. A hierarchical model for spatial capture-recapture data: comment.  Ecology. 92: 526-528.
        • Mellinger, D.K., S.W. Martin, R.P. Morrissey, L. Thomas and J.J. Yosco.  2011.  A method for detecting whistles, moans and other frequency contour sounds.  Journal of the Acoustical Society of America 129: 4055-4061.

        • Ward, J., S. Jarvis, D. Moretti, N. DiMarzio, M. Johnson, P. Tyack, L. Thomas and T.A. Marques.  2011.  Beaked whale (Mesoplodon densirostris) passive acoustic detection in increasing ambient noise.  Journal of the Acoustical Society of America 129: 662-669.
        • Moretti, D., T.A. Marques, L. Thomas, N. DiMarzio, A. Dilley, R. Morrissey, E. McCarthy, J. Ward and S. Jarvis.  2010.  A dive counting density estimation method for Blainville's beaked whale (Mesoplodon densirostris) using a bottom-mounted hydrophone field as applied to a Mid-Frequency Active (MFA) sonar operation.  Applied Acoustics 71: 1036-2042.
        • Marques, T.A., L. Thomas, J. Ward, N. DiMarzio, P. L. Tyack. 2009. Estimating cetacean population density using fixed passive acoustics sensors: an example with beaked whales. Journal of the Acoustical Society of America 125(4): 1982-1994.

        • DiMarzio, N., D. Moretti, J. Ward, R. Morrissey, S. Jarvis, A.M. Izzi, M. Johnson, P. Tyack and A. Hansen. 2008. Passive acoustic measurement of dive vocal behavior and group size of Blainville's beaked whale (Mesoplodon Densirostris) in the Tongue of the Ocean (TOTO). Canadian Acoustics 36(1): 166-173.
        • Ward, J., R. Morrissey, D. Moretti, N. DiMarzio, S. Jarvis, M. Johnson, P. Tyack and C. White.  2008. Passive acoustic detection and localization of Mesoplodon Densirostris (Blainville's beaked whale) vocalizations using distributed bottom mounted hydrophones in conjunction with a digital tag (DTAG) recording. Canadian Acoustics 36(1): 60-66.

        Related papers by project members

        • Marques, T.A., L. Thomas, L. Munger, S. Wiggins and J.A. Hildebrand.  2011. Estimating North Pacific right whale (Eubalaena japonica) density using passive acoustic cue counting.  Endangered Species Research 13: 163-172.
          • Full text. (pdf)
          • Article at publisher's web site doi:10.3354/esr00325
          • An End Sp Res Erratum was published on this. Open access here.  A complete explanation regarding the issue is presented in a CREEM report which can be found here.

        Annual reports

        Reports submitted to the National Oceanographic Partnership Program, covering project activities up until 30th September of each year.

        • 2010 Annual report.  (pdf)  Dated 20 November 2010; covering activities up to 30 September 2010. 
        • 2009 Annual report.  (pdf)  Dated 1 December 2009; covering activities up to 30 September 2009. 
        • 2008 Annual report.  (pdf)  Dated 1 December 2008; covering activities up to 30 September 2008. 
        • 2007 Annual report.  (pdf) Dated 11 November 2007; covering activities up to 30 September 2007.

        Technical reports and white papers

        Talks

        • Thomas, 2012. DECAF: Density Estimation for Cetaceans from passive Acoustic Fixed sensors.  Joint Industry Program on Sound and Marine Life Program Review. 31 May 2012, Dulles, VA.  Talk.
        • Thomas, L. 2011. Passive Acoustic Density Estimation. Workshop on new developments in cetacean survey methods, Society for Marine Mammology Biennial Conference. 27 November 2011, Tampa, FL.
        • Thomas, L., T.A. Marques, S. Martin, D.J. Moretti, D. Mellinger, J. Ward, P. Tyack and D. Harris. 2011. DECAF (Density Estimation for Cetaceans from pasive Acoustic Fixed sensors) and beyond.  4th International Conference on the Effect of Sound on Marine Mammals.  5-9 September, Amsterdam.
        • Marques, T.A., L. Thomas, S. Martin, D.K. Mellinger, J. Ward, P.L. Tyack, D.J. Moretti and D. Harris. 2011. Estimating cetacean density: if you can't see them then ... listen! Fifth International Workshop on Detection, Classification, Localization and Density Estimation of Marine Mammals using Passive Acoustics. August 25th, Mount Hood, Oregon.
        • Thomas, L., and T. Marques. 2010. Estimating population density from fixed passive acoustic detectors.  International Statistical Ecology Conference 6 June 2010.  Talk.
        • Talks at the special session on "Estimating Spatial Density of Animal Populations with Passive Acoustics" at the Acoustical Society of America conference, Apr. 19-23, 2010, Baltimore:  (These are just talks by DECAF team members; see Open Meetings page for abstracts for all talks given that day)
          • Thomas, L., and T. Marques. 2010. Review of methods for estimating spatial density of animal populations with passive acoustics. Talk.
          • Küsel, E.T., D.K. Mellinger, L. Thomas, T.A. Marques, D.J. Moretti, and J. Ward. 2010. Estimating density from single hydrophones by means of propagation modeling. Abstract.
          • Mellinger, D.K., E.T. Küsel, L. Thomas, T. Marques, D. Moretti, P. Baggenstoss, J. Ward, N. DiMarzio, and R. Morrissey. 2010. Population density of sperm whales in the Bahamas estimated using propagation modeling. Abstract and talk.
          • Martin, S.W., L. Thomas, T.A. Marques, R.P. Morrissey, S. Jarvis, N. DiMarzio and D.K. Mellinger.  2010.  Minke whale boing vocalization density estimation at the Pacific Missile Range Facility, Hawaii.  Abstract.
        • Mellinger, D.K., E.T. Küsel, L. Thomas, T. Marques. 2009. Taming the Jez monster: Estimating fin whale spatial density using acoustic propagation modeling. Talk given at Fall 2009 meeting of the Acoustical Society of America, San Antonio, TX, USA, 28 October 2009. Abstract in J. Acoust. Soc. Am. 126(4):2229(A). PDF here.
        • Marques, T.A., L. Thomas, S.W. Martin, D.K. Mellinger, S. Jarvis, N. DiMarzio and R.P. Morrissey.  2009. Spatially explicit capture-recapture methods to estimate minke whale abundance from data collected at bottom-mounted hydrophones.  Talk given at EURING 2009 technical meeting, Pescara, Italy, 15th September 2009.
        • Talks given at one-day workshop: 1st International Workshop on Density Estimation of Marine Mammals Using Passive Acoustics, September 13th 2009: (These are just talks given by DECAF team members; see Open Meetings page for agenda and abstracts for all talks given that day)
          • Thomas, L. and T. Marques. 2009. Review of methods for estimating cetacean density from passive acoustics.
          • Marques, T.A., L. Thomas, J. Ward, N. DiMarzio, D. Moretti and P.L. Tyack. 2009.  Accounting for ambient noise in Blainville’s beaked whales density estimation.
          • Küsel, E.T., D. K. Mellinger, L. Thomas, T. A. Marques, D. J. Moretti,  and J. Ward. 2009. Density estimation of Blainville’s beaked whales (Mesoplodon densirostris) from single hydrophones by means of propagation modeling.
          • DiMarzio, N., D. Moretti, J. Ward, R. Morrissey, S. Jarvis, E. McCarthy, M. Johnson, P. Tyack, D. Claridge, C. Dunn, T. Marques and L. Thomas. 2009. Passive acoustic density estimation of Blainville’s beaked whales (Mesoplodon densirostris) using group localization combined with click counting.
        • Thomas, L. and T. Marques. 2009 Estimating whale densities from their calls.  Talk given at NCSE annual workshop, St Andrews, 22nd June 2009.
        • Küsel, E., D. Mellinger, L. Thomas, T. Marques, D. Moretti and J. Ward.  2009.  Beaked whale density estimation from single hyrdophones by means of propagation modeling.  Talk given at 157th meeting of the Acoustical Society of America, May 18-22nd 2009.
        • Thomas, L. 2008.  DECAF - Density Estimation for Cetaceans from passive Acoustic Fixed sensors (pdf).  Talk given at the Joint Industry Programme (JIP) on Exploration and Production, Sound and Marine Life, Programme Review Meeting, Houston, USA. 30 October 2008.
        • Marques, T. A. and L. Thomas. 2008. Density estimation for cetaceans from passive acoustic sensors: an example with beaked whales.  Talk given at the XVI Congress of the Portuguese Statistical Society, Vila Real, Portugal.  3 October 2008.
        • Presentations given at "Density Estimation from Passive Acoustics" Workshop held in Paris, 29th June 2008. List of presentations from Paris workshop (pdf)
        • Marques, T. A. and L. Thomas. 2008. DECAF Overview and Initial Results.  CREEM Seminar Series, University of St Andrews. 27 February 2008.

        Poster presentations

        Data files

        Files containing datasets generated during the DECAF project are in the Data Files directory and from the OBIS-SEAMAP web site.

        Tutorial material

         Copies of tutorial lecture notes, datasets and computer code are available from the Open Meetings page of this web site.

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