= Publications and Presentations =

[[PageOutline(2,Publications and Presentations)]]

== Presentations ==

PDAF has been presented at different conferences. Here are slides from some of these presentations:

[http://pdaf.awi.de/files/Nerger_Tutorial_PDAF_OSM2018.pdf Ensemble Data Assimilation with the Parallel Data Assimilation Framework],[[BR]]    Tutorial Session at Ocean Sciences Meeting 2018, Portland, OR, USA, February 12-16, 2018. 

[http://pdaf.awi.de/files/Nerger_EnsDA_OSM2016.pdf An introduction to Ensemble Data Assimilation],[[BR]]    Tutorial Session at Ocean Sciences Meeting 2016, New Orleans, USA, February 21-26, 2016. 

[http://pdaf.awi.de/files/NergerKirchgessner_EnsDASystem_Liege2015.pdf Building Ensemble-Based Data Assimilation Systems for High-Dimensional Models],[[BR]]    47th International Liege Colloquium, Liege, Belgium, May 4-8, 2015. 

[http://pdaf.awi.de/files/Nerger_scalableDA_Delft2011.pdf The Parallel Data Assimilation Framework PDAF for scalable sequential data assimilation],[[BR]]    Workshop on Programming Environments for Data Assimilation: Software and Applications, Deltares, Delft, Netherlands, January 31, 2011. 

[http://pdaf.awi.de/files/Nerger_scalableDA_Portland2010.pdf Scalable sequential data assimilation with the Parallel Data Assimilation Framework PDAF],[[BR]]    2010 Ocean Sciences Meeting, Portland, Oregon, February 20-26, 2010. 

[http://pdaf.awi.de/files/Nerger_PDAF_ECMWF2008.pdf Sequential data assimilation on high-performance computers with the Parallel Data Assimilation Framework],[[BR]]     13th ECMWF Workshop on High Performance Computing in Meteorology, Reading, UK, November 3-7, 2008. 

[http://pdaf.awi.de/files/Nerger_PDAF_ECMWF2004.pdf PDAF - The Parallel Data Assimilation Framework: Experiences with Kalman Filtering],[[BR]]     11th ECMWF Workshop on Use of High Performance Computing in Meteorology, Reading, UK, October 25-29, 2004. 

== Publications about PDAF ==

Nerger, L., Hiller, W. (2013). Software for Ensemble-based Data Assimilation Systems - Implementation Strategies and Scalability. Computers and Geosciences, 55, 110-118. [http://dx.doi.org/10.1016/j.cageo.2012.03.026 doi:10.1016/j.cageo.2012.03.026]

Nerger, L., Hiller, W., Schröter, J.(2005). PDAF - The Parallel Data Assimilation Framework: Experiences with Kalman Filtering, Use of high performance computing in meteorology : proceedings of the Eleventh ECMWF Workshop on the Use of High Performance Computing in Meteorology, Reading, UK, 25 - 29 October 2004 / Eds.: Walter Zwieflhofer; George Mozdzynski, Singapore: World Scientific, 63-83. 

== Publications involving PDAF - by the PDAF developers ==

=== In Press

Androsov, A., Nerger, L. , Schnur, R., Schröter, J., Albertella, A., Rummel, R., Savcenko, R., Bosch, W., Skachko, S., Danilov, S. (2018) On the assimilation of absolute geodetic dynamic topography in a global ocean model: impact on the deep ocean state. Journal of Geodesy, [https://doi.org/10.1007/s00190-018-1151-1 doi:10.1007/s00190-018-1151-1]

=== 2018

Vetra-Carvalho, S., van Leeuwen, P. J., Nerger, L., Barth, A., Altaf, M. U., Brasseur, P., Kirchgessner, P., Beckers, J.-M. (2018) State-of-the-art stochastic data assimilation methods for high-dimensional non-Gaussian problems. Tellus A, 70:1, 1445364 [https://doi.org/10.1080/16000870.2018.1445364 doi:10.1080/16000870.2018.1445364]

Mu, L., Yang, Q., Losch, M., Losa, S.N., Ricker, R., Nerger, L., Liang, X. (2018) Improving sea ice thickness estimates by assimilating !CryoSat-2 and SMOS sea ice thickness data simultaneously. Quarterly Journal of the Royal Meteorological Society. 144, 529-538 [https://doi.org/10.1002/qj.3225 doi:10.1002/qj.3225]

=== 2017 ===

Liang, X., Yang, Q., Nerger, L., Losa, S. N., Zhao, B., Zheng, F., Zhang, L., Wu, L. (2017) Assimilating Copernicus SST data into a pan-Arctic ice-ocean coupled model with a local SEIK filter. Journal of Atmospheric and Oceanic Technology, 34, 1985-1999 [https://doi.org/10.1175/JTECH-D-16-0166.1 doi:10.1175/JTECH-D-16-0166.1]

Kirchgessner, P., Tödter, J., Ahrens, B., Nerger, L. (2017) The smoother extension of the nonlinear ensemble
transform filter. Tellus A, 69, 1327766, 2017 [http://dx.doi.org/10.1080/16000870.2017.1327766 doi:10.1080/16000870.2017.1327766]

=== 2016 ===

Nerger, L., Losa, S. N., Brüning T., Janssen F. (2016) The HBM-PDAF assimilation system for operational forecasts in the North and Baltic Seas, in Operational Oceanography for Sustainable Blue Growth. Proceedings of the Seventh EuroGOOS International Confer- ence. 28-30 October 2014, Lisbon, Portugal / Eds. E. Buch, Y. Antoniou, D. Eparkhina, G. Nolan. ISBN 978-2-9601883-1-8

Yang, Q., Losch, M., Losa, S., Jung, T., Nerger, L., Lavergne, T. (2016) Brief communication: The challenge and benefit of using sea ice concentration satellite data products with uncertainty estimates in summer sea ice data assimilation. The Cryosphere, 10, 761-774, 2016 [http://dx.doi.org/10.5194/tc-10-761-2016 doi:10.5194/tc-10-761-2016])

Yang, Q., Losch, M., Losa, S. N., Jung T., Nerger, L. (2016) Taking into account atmospheric uncertainty improves sequential assimilation of SMOS sea ice thickness data in an ice-ocean model. Journal of Atmospheric and Oceanic Technology, 33, 397-407 [http://dx.doi.org/10.1175/JTECH-D-15-0176.1 doi:10.1175/JTECH-D-15-0176.1]

Tödter, J., Kirchgessner, P., Nerger, L., Ahrens, B. (2016) Assessment of a nonlinear ensemble transform filter for high-dimensional data assimilation. Monthly Weather Review, 144, 409-427 [http://dx.doi.org/10.1175/MWR-D-15-0073.1 doi:10.1175/MWR-D-15-0073.1]

=== 2015 ===

Brune, S., Nerger, L., Baehr, J. (2015) Assimilation of oceanic observations in a global coupled Earth system
model with the SEIK filter Ocean Modelling. Ocean Modelling, 96, 254-264 [http://dx.doi.org/10.1016/j.ocemod.2015.09.011 doi:10.1016/j.ocemod.2015.09.011]

Yang, Q., Losa, S. N., Losch, M., Jung, T., Nerger, L. (2015) The role of atmospheric uncertainty in Arctic summer sea
ice data assimilation and prediction. Quarterly Journal of the Royal Meteorological Society, 141, 2314-2323 [http://dx.doi.org/10.1002/qj.2523 doi:10.1002/qj.2523]

Nerger, L. (2015) On serial observation processing in localized ensemble Kalman filters. Monthly Weather Review, 143, 1554-1567 [http://dx.doi.org/10.1175/MWR-D-14-00182.1 doi:10.1175/MWR-D-14-00182.1] 

Yang, Q., Losa, S. N., Losch, M., Liu, J. , Zhang, Z., Nerger, L., Yang, H. (2015) Assimilating summer sea ice concentration into a coupled ice-ocean model using a local SEIK filter. Annals of Glaciology, 56(69), 39-44, [http://dx.doi.org/10.3189/2015AoG69A740 doi:10.3189/2015AoG69A740]

=== 2014 ===

Kirchgessner, P., Nerger, L., Bunse-Gerstner, A. (2014) On the choice of an optimal localization radius in ensemble Kalman filter methods. Monthly Weather Review, 142, 2165-2175, [http://dx.doi.org/10.1175/MWR-D-13-00246.1 doi:10.1175/MWR-D-13-00246.1]

Losa, S.N., Danilov, S., Schröter, J., Janjic, T., Nerger, L., Janssen, F. (2014). Assimilating NOAA SST data into the BSH operational circulation model for the North and Baltic Seas: Part 2. Sensitivity of the forecast's skill to the prior model error statistics. Journal of Marine Systems, 129, 259-270  [http://dx.doi.org/10.1016/j.jmarsys.2013.06.011 doi:10.1016/j.jmarsys.2013.06.011]

Nerger, L., Schulte, S., Bunse-Gerstner, A. (2014) On the influence of model nonlinearity and localization on ensemble Kalman smoothing. Quarterly Journal of the Royal Meteorological Society, 140, 2249-2259, [http://dx.doi.org/10.1002/qj.2293 doi:10.1002/qj.2293]

Yang, Q., Losa, S. N., Losch, M., Tian-Kunze, X., Nerger, L., Liu, J., Kaleschke, L., Zhang, Z. (2014) Assimilating SMOS sea ice thickness into a coupled ice-ocean model using a local SEIK filter. Journal of Geophysical Research-Oceans, 119, 6680-6692, [http://dx.doi.org/10.1002/2014JC009963 doi:10.1002/2014JC009963]

=== 2013 ===

Fournier, A., Nerger, L., Aubert, J. (2013). An ensemble Kalman filter for the time-dependent analysis of the geomagnetic field. Geochemistry, Geophysics, Geosystems, 14, 4035-4043 [http://dx.doi.org/10.1002/ggge.20252 doi:10.1002/ggge.20252]

=== 2012 ===

Nerger, L., Janjić, T., Schröter, J., Hiller, W. (2012). A unification of ensemble square root Kalman filters. Monthly Weather Review, 140, 2335-2345. [http://dx.doi.org/doi:10.1175/MWR-D-11-00102.1 doi:10.1175/MWR-D-11-00102.1]

Nerger, L., Janjić, T., Schröter, J., Hiller, W. (2012). A regulated localization scheme for ensemble-based Kalman filters. Quarterly Journal of the Royal Meteorological Society, 138, 802-812. [http://dx.doi.org/doi:10.1002/qj.945 doi:10.1002/qj.945].

Losa, S.N., Danilov, S., Schröter, J., Nerger, L., Massmann, S., Janssen, F. (2012). Assimilating NOAA SST data into the BSH operational circulation model for the North and Baltic Seas: Inference about the data. Journal of Marine Systems, 105-108, pp. 152-162. [http://dx.doi.org/10.1016/j.jmarsys.2012.07.008 doi:10.1016/j.jmarsys.2012.07.008]

=== 2011 ===

Janjić, T., Nerger, L., Albertella, A., Schröter, J., Skachko, S. (2011). On domain localization in ensemble based Kalman filter algorithms. Monthly Weather Review, 139, 2046-2060 [http://dx.doi.org/10.1175/2011MWR3552.1 doi:10.1175/2011MWR3552.1].
 
=== 2008 === 

Nerger, L., Gregg, W. W.(2008). Improving Assimilation of SeaWiFS Data by the Application of Bias Correction with a Local SEIK Filter, Journal of Marine Systems, 73 (2008) 87-102, [http://dx.doi.org/10.1016/j.jmarsys.2007.09.007 doi:10.1016/j.jmarsys.2007.09.007].
 
=== 2007 === 

Nerger, L., Gregg, W. W.(2007). Assimilation of SeaWiFS data into a global ocean-biogeochemical model using a local SEIK Filter, Journal of Marine Systems, 68, 237-254, [http://dx.doi.org/10.1016/j.jmarsys.2006.11.009 doi:10.1016/j.jmarsys.2006.11.009].

Nerger, L., Danilov, S., Kivman, G., Hiller, W., Schröter, J.(2007). Data assimilation with the Ensemble Kalman Filter and the SEIK filter applied to a finite element model of the North Atlantic, Journal of Marine Systems, 65(1/4), 288-298., [http://dx.doi.org/10.1016/j.jmarsys.2005.06.009 doi:10.1016/j.jmarsys.2005.06.009].
 
=== 2006 === 

Nerger, L., Danilov, S., Hiller, W., Schröter, J.(2006). Using sea-level data to constrain a finite-element primitive-equation ocean model with a local SEIK filter, Ocean Dynamics, 56(5/6), 634-649., [http://dx.doi.org/10.1007/s10236-006-0083-0 doi:10.1007/s10236-006-0083-0].
 
=== 2005 ===
Nerger, L., Hiller, W., Schröter, J.(2005). A Comparison of Error Subspace Kalman Filters, Tellus series A-Dynamic Meteorology and Oceanography, 57A(5), 715-735, [http://dx.doi.org/10.1111/j.1600-0870.2005.00141.x doi:10.1111/j.1600-0870.2005.00141.x].
 
=== 2004 === 
Nerger, L.(2004). Parallel Filter Algorithms for Data Assimilation in Oceanography, PhD Thesis, University of Bremen, 2004 ([http://www.awi.de/en/infrastructure/library/awi_periodicals/reports_on_polar_and_marine_research/ Reports on Polar and Marine Research], 487, 174 pp.)



== Publications by PDAF users ==

(This list is likely incomplete. If you see a paper missing, please write to us at pdaf _at_ awi _dot_ de)

=== 2018 ===

Shrestha, P., Kurtz, W., Vogel, G., Schulz, J.-P., Sulis, M., Hendricks Franssen, H.-J., Kollet, S., Simmern, C. (2018). Connection between root
zone soil moisture and surface energy flux partitioning using modeling, observations, and data assimilation for a temperate grassland site in Germany.
Journal of Geophysical Research: Biogeosciences, 123. [https://doi.org/10.1029/2016JG003753]

Liu, Y, W. Fu (2018). Assimilating high-resolution sea surface temperature data improves the ocean forecast potential in the Baltic Sea. Ocean Science 14(2018) 525-541 [https://doi.org/10.5194/os-14-525-2018] (The paper doesn't mention PDAF, but the author's confirmed that PDAF with offline-coupling to NEMO was used)

Bocher, M., A. Fournier, N. Coltice (2018). Ensemble Kalman filter for the reconstruction of the Earth's mantle circulation. Nonlin. Proc. Geophys., 25 (2018) 99-123 [https://doi.org/10.5194/npg-25-99-2018]

Zhang, H., W. Kurtz, S. Kollet, H. Vereecken, H.-J. Hendricks Franssen (2018). Comparison of different assimilation methodologies of groundwater levels to improve predictions of root zone soil moisture with an integrated terrestrial system model. Advances in Water Resources, 111 (2018) 224-238 [http://doi.org/10.1016/j.advwatres.2017.11.003]

=== 2017 ===

Zhang, Y., Hou, J., Gu, J., Huang, C., Li, X. (2017). SWAT-based hydrological data assimilation system (SWAT-HDAS): Description and case application to river basin-scale hydrological predictions. Journal of Advances in Modeling Earth Systems, 9 (2017) 2863–2882 [https://doi.org/10.1002/2017MS001144]

Chen, Z., J. Liu, M. Song, Q. Yang, S. Xu (2017). Impacts of Assimilating Satellite Sea Ice Concentration and Thickness on Arctic Sea Ice Prediction in the NCEP Climate Forecast System. J. Climate, 30 (2017) 8429-8446 [https://doi.org/10.1175/JCLI-D-17-0093.1]

Irrgang, C., J. Saynisch, M. Thomas (2017). Utilizing oceanic electromagnetic induction to constrain an ocean general circulation model: A data assimilation twin experiment. Journal of Advances in Modeling Earth Systems, 9 (2017) 1703-1720 [https://doi.org/10.1002/2017MS000951]

Baatz, D., W. Kurtz, H.J. Hendricks Franssen, H. Vereecken, S.J. Kollet (2017). Catchment tomography - An approach for spatial parameter estimation. Advances in Water Resources 107 (2017) 147–159 [https://doi.org/10.1016/j.advwatres.2017.06.006]

=== 2016 ===

Kurtz, W., G. He, S. J. Kollet, R. M. Maxwell, H. Vereecken, H.-J. Hendrics Franssen (2016). TerrSysMP–PDAF (version 1.0): a modular high-performance data
assimilation framework for an integrated land surface–subsurface model. Geoscientific Model Development, 9, 1341-1360, 2016 [http://dx.doi.org/10.5194/gmd-9-1341-2016]

=== 2012 ===

Janjić, T., Schröter, J., Savcenko, R., Bosch, W., Albertella, A., Rummel, R., Klatt, O. (2012). Impact of combining GRACE and GOCE gravity data on ocean circulation estimates. Ocean Science, 8, 65-79 [http://dx.doi.org/doi:10.5194/os-8-65-2012 doi:10.5194/os-8-65-2012].

Janjić, T., Schröter, J., Albertella, A., Bosch, W., Rummel, R., Savcenko, R., Schwabe, J., Scheinert, M. (2012). Assimilation of geodetic dynamic ocean topography using ensemble based Kalman filter. Journal of Geodynamics, 59-60, pp. 92-98 [http://dx.doi.org/doi:10.5194/os-8-65-2012 doi:10.5194/os-8-65-2012].

Saynisch, J., Thomas, M. (2012). Ensemble Kalman‐Filtering of Earth rotation observations with aglobal ocean model. Journal of Geodynamics, 62, 24‐29 [http://dx.doi.org/10.1016/j.jog.2011.10.003 doi:10.1016/j.jog.2011.10.003]

=== 2009 ===

Rollenhagen, K., Timmermann, R., Janjic, T., Schröter, J., Danilov, S.(2009). Assimilation of sea ice motion in a Finite Element Sea Ice Model, Journal of Geophysical Research, 114, C05007, [http://dx.doi.org/10.1029/2008JC005067 doi:10.1029/2008JC005067].
 
=== 2008 === 

Skachko, S., Danilov, S., Janjic, T., Schröter, J., Sidorenko, D., Savcenko, R., Bosch, W.(2008). Sequential assimilation of multi-mission dynamical topography into a global finite-element ocean model, Ocean Science, 4, 307-318, [http://dx.doi.org/10.5194/os-4-307-2008 doi:10.5194/os-4-307-2008].