Arpon J, Gaudin V, Andrey P (in press). A method for testing random spatial model on nuclear object distributions. Methods in Molecular Biology, Special Issue on "Plant Chromatin Dynamics".
Arganda-Carreras I, Andrey P (2017). Designing Image Analysis Pipelines in Light Microscopy: A Rational Approach. Methods Mol Biol, 1563, 185-207.
Biot E, Cortizo M, Burguet J, Kiss A, Oughou M, Maugarny-Calès A, Gonçalves B, Adroher B, Andrey P, Boudaoud A, Laufs P (2016). Multiscale quantification of morphodynamics: MorphoLeaf, software for 2-D shape analysis. Development, 143, 3417-3428
Biot E, Crowell E, Burguet J, Höfte H, Vernhettes S, Andrey P (2016). Strategy and software for the statistical spatial analysis of 3D intracellular distributions. Plant Journal, 87, 230-42.
Legland D, Arganda-Carreras I, Andrey P (2016). MorphoLibJ: integrated library and plugins for mathematical morphology with ImageJ. Bioinformatics, 32, 3532-3534.
Poulet A, Arganda-Carreras I, Legland D, Probst AV, Andrey P, Tatout C (2015). NucleusJ: an ImageJ plugin for quantifying 3D images of interphase nuclei. Bioinformatics, 31, 1144-6.
Burguet J, Andrey P (2014). Statistical comparison of spatial point patterns in biological imaging. PLoS One, 9, e8775 (on line).
Gul-Mohammed J, Arganda-Carreras I, Andrey P, Galy V, Boudier T (2014). A generic classification-based method for segmentation of nuclei in 3D images of early embryos. BMC Bioinformatics, 15, 9 (pdf)
Legland D, Beaugrand J (2013). Automated clustering of lignocellulosic fibres based on morphometric features and using clustering of variables. Industrial Crops and Products, 45, 253-261 (abstract)
Burguet J, Mailly P, Maurin Y, Andrey P (2011a). Reconstructing the three-dimensional surface of a branching and merging biological structure from a stack of coplanar contours. Eighth IEEE International Symposium on Biomedical Imaging (ISBI 2011): From Nano to Macro, 602-605.
Burguet J, Maurin Y, Andrey P (2011b). A method for modeling and visualizing the three-dimensional organization of neuron populations from replicated data: properties, implementation and illustration. Pattern Recognition Letters, 32, 1894-1901.
Andrey P, Kiêu K, Kress C, Lehmann G, Tirichine L, Liu Z, Biot E, Adenot P.-G, Hue-Beauvais C, Houba-Hérin N, Duranthon V, Devinoy E, Beaujean N, Gaudin V, Maurin Y, Debey P (2010). Statistical analysis of 3D images detects regular spatial distributions of centromeres and chromocenters in animal and plant nuclei. PLoS Computational Biology, 6, e1000853.
Legland D, Guillon F, Kiêu K, Bouchet B, Devaux M.-F. (2010). Stereological Estimation of cell wall density of DR12 tomato mutant using three-dimensional confocal imaging. Annals of Botany, 105, 265-276.
Legland D, Devaux M.-F., Guillon F. (2011). Spatial normalisation of maize stem vascular bundles for cartography of their density. Proc. of the 13th International Congress For Stereology, Tsinghua University, Beijing, China Oct. 19-23.
Gaudin V, Andrey P, Devinoy E, Kress C, Kiêu K, Beaujean N, Maurin Y, Debey P (2009). Modeling the 3D functional architecture of the nucleus in animal and plant kingdoms. C. R. Biologies, 332, 937-946.
Biot E, Crowell E, Höfte H, Maurin Y, Vernhettes S, Andrey P (2008). A new filter for spot extraction in N-dimensional biological imaging. Fifth IEEE International Symposium on Biomedical Imaging (ISBI'08): From Nano to Macro, 975-978.
Andrey P, Maschino E, Maurin Y (2008). Spatial normalisation of three-dimensional neuroanatomical models using shape registration, averaging, and warping. Fifth IEEE International Symposium on Biomedical Imaging (ISBI'08): From Nano to Macro, 1183-1186.
Maschino E, Maurin Y, Andrey P (2006). Joint registration and averaging of multiple 3D anatomical surface models. Computer Vision and Image Understanding, 101, 16-30.
Andrey P, Maurin Y (2005). Free-D: an integrated environment for three-dimensional reconstruction from serial sections. Journal of Neuroscience Methods, 145, 233-244.