Selected publications

• Work under submission
• Journal articles
• Conference articles etc.
• Other material

Work under submission

• Højsgaard, S., Green, P. G.,  Friggens, N. A cyclical state space model for prediction of progesterone concentration in milk from dairy cows. In preparation
• Jørgen Djurhuus, Goswin Heckrath, Bjarne Hansen, Preben Olsen, Ole Højby Jacobsen and Søren Højsgaard. An expert system to predict water erosion in denmark – data and influence of model parameters. In preparation.
• Søren Højsgaard, Jørgen Djurhuus, and Goswin Heckrath. A stochastic model for prediction of water erosion. In preparation.
• Højsgaard, S., Munksgaard, L. (2009) Detecting eating behaviour from positioning data for dairy cows. In preparation
  
• Jared O'Connell, Søren Højsgaard (2009)  Multiple Hidden Semi Markov Models - The mhsmm Package Submitted. manuscript
• Højsgaard, S (2009). Graphical Independence Networks with the gRain package for R.  In preparation. manuscript
• Frede Aakmann Tøgersen, Flemming Skjøth, Lene Munksgaard, and Søren Højsgaard (2008) RSSI based indoor tracking in sensor networks using Kalman filters Submitted.
• Lars Relund Nielsen, Erik Jørgensen, and Søren Højsgaard. (2008) Embedding a state space model into a Markov decision process. Submitted.
• Lenth, R.; Højsgaard, S. (2009) Literate programming in statistics with multiple languages. Submitted. manuscript
  
• Højsgaard, S., Friggens, N. (2009) Quantifying Degree of Mastitis from Common Trends in a Panel of Indicators for Mastitis in Dairy Cows. To appear in Journal of Dairy Science
• Jared O'Connell, Frede A. Tøgersen, Nicolas C. Friggens, Peter Løvendahl, Søren Højsgaard (2009). Combining cattle activity and progesterone measurements using hidden semi-Markov models. To appear in Journal of Agricultural, Biological and Environmental Statistics.

Journal articles

• Bossen,D., Weisbjerg, M.R., Munksgaard, L., Højsgaard, S. (2009) Allocation of feed based on individual dairy cow live weight changes I: Feed intake and live weight changes during lactation.  Livestock Science Vol 126, p. 252-272.
• Sørensen, M T ; Vestergaard, E M ; Jensen, S K ; Lauridsen, C ; Højsgaard, S (2009) Performance and diarrhoea in piglets following weaning at seven weeks of age: Challenge with E. coli O 149 and effect of dietary factors. Livestock Science. 2009 ; 123, 314-321. 
• Højsgaard, S. and Lauritzen, S. L. (2008). Graphical Gaussian models with edge and vertex symmetries. Journal of the Royal Statistical Society, Series B;  70(5),  p. 1005-1027
• N. C. Friggens, M. Bjerring, C. Ridder, S. Højsgaard and T. Larsen (2008). Improved Detection of Reproductive Status in Dairy Cows using Milk Progesterone Measurements. Reprod. Domestic Anim; Vol. 43, p. 113-121 
• Højsgaard, S. and Lauritzen, S. L. (2007). Inference in graphical Gaussian models with edge and vertex symmetries with the gRc package for R. Journal of Statistical Software, 23, 6.  The gRc package. 
• Friggens N, Chagunda M, Bjerring M, Ridder C, Højsgaard S, Larsen T. (2007). Estimating degree of mastitis from time-series measurements in milk: A test of a model based on lactate dehydrogenase measurements. Journal of Dairy Science. 2007, 90(12): 5415-5427
• Lenth, Russell V ; Højsgaard, Søren (2007) SASWeave: Literate Programming Using SAS. Journal of Statistical Software, 19(8)  Hansen, Jørgen Vinsløv ; Friggens, Nicolas; Højsgaard, Søren. (2006) The influence of breed and parity on milk yield, and milk yield acceleration curves. Livestock Science. 2006; vol. 104, s. 53-62.
• Halekoh, U., Højsgaard, S., Yan, J. (2006).The package geepack for generalized estimating equations. Journal of Statistical Software. 15, 2
• Dethlefsen, C., Højsgaard, S. (2005) A Common Platform for Graphical Models in R: The gRbase Package. Journal of Statistical Software 14, 17
• Højsgaard, S. (2004) Statistical Inference in Context Specific Interaction Models for Contingency Tables. Scandinavian Journal of Statistics. 31,1, p.143-158
• Højsgaard, S. (2004) The mimR Package for Graphical Modelling in R. Journal of Statistical Software 11, 6.
• Højsgaard, S. (2003). Split models for contingency tables. Computional Statistics & Data Analysis. 42,  4, p. 621-645

Conference articles etc.

• Jónsson, R.I.; Blanke, M.; Poulsen, N.K., Munksgaard, L. and Højsgaard, S (2009) Combination of activity and lying/standing data for detection of oestrus in cows. In Precision livestock Farming '09, Wageningen Academic Publishers p. 207-214.
• Lenth, R; Højsgaard, S (2009): Literate programming with multiple languages. Presented at the DSC2009 conference, 13-14 July 2009, Copenhagen, Denmark. Download
• Højsgaard, S (2009): Where are the cows and what are they doing. Presented at 2nd Nordic-Baltic Biometric Conference, 10-12 June 2009, Tartu, Estonia. Download
• Højsgaard, S; Lenth R (2009): Reproducible statistical analysis with StatWeave. Poster Presented at 2nd Nordic-Baltic Biometric Conference, 10-12 June 2009, Tartu, Estonia.
• Højsgaard S., Green P. J., Friggens, N. (2008) A cyclical state space model for prediction of progesterone concentration in milk from dairy cows.  Research workshop on Functional and Longitudinal Data Analysis. University of Copenhagen, Faculty of Life Sciences, September 2008, http://www.dina.kvl.dk/~ib/FDA2008-RW/
• Højsgaard, S (2008). Graphical models for sparse data: Graphical gaussian models with vertex and edge symmetries. In Proceedings in Computational Statistics (COMPSTAT), p. 105-116. Download
• Højsgaard, S (2008) RCOX models: Graphical Gaussian models with edge and vertex symmetries.  Presented at  London Mathematical Society Durham Symposium "Mathematical Aspects of Graphical Models", 30. June - 10. July, 2008.  http://www.maths.dur.ac.uk/events/Meetings/LMS/2008/MAGM/talks.html
• Ragnar I. Jónsson, Trausti Björgvinsson, Mogens Blanke, Niels K. Poulsen, Søren Højsgaard, Lene Munksgaard (2008). Oestrus Detection in Dairy Cows Using Likelihood Ratio Tests. To appear in proceedings of  17th International Federation of Automatic Control (IFAC) congress; http://www.ifac2008.org
• Djurhuus J, Højsgaard S, Heckrath G, Olsen P (2007). An expert system for predicting rill erosion in Denmark. In: Heckrath G, Rubæk GH, Kronvang B, editors. Diffuse Phosphorus Loss. Risk Assessment, Mitigation Options and Ecological Effects in River Basins. The 5th International Phosphorus Workshop (IPW5). 2007, pp. 453-456. (DJF Report, Plant Science; 130).
• Sørensen M. T., Højsgaard S. (2007) Effect of field crops on animals: Considerations with regard to design using Chlormequat-treated wheat as an example. In: Proceedings of the 3rd International Congress of the European Integrated Project "Quality Low Input Food (QLIF)". University of Hohenheim. 2007, pp. 118-121.
• S. Højsgaard and S. L. Lauritzen.(2005) Restricted concentration models - graphical Gaussian models with concentration parameters restricted to being equal. Proceedings of the Tenth International Workshop on Artificial Intelligence and Statistics, Jan 6-8, 2005, Savannah Hotel, Barbados, pp. 152-157. R. G. Cowell and Z. Ghahramani (eds). Society for Artificial Intelligence and Statistics, 2005. Available electronically at http://www.gatsby.ucl.ac.uk/aistats/

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