A development environment for medical image processing and visualization, 2006. ,
Visualization and computer graphics library, pp.2017-2018, 2011. ,
javaPlex: A Research Software Package for Persistent (Co)Homology, ICMS, 2014. ,
DOI : 10.1007/978-3-662-44199-2_23
Paraview: An end-user tool for largedata visualization. The Visualization Handbook, pp.717-731, 2005. ,
Persistencesensitive simplification of functions on surfaces in linear time, 2009. ,
Continuous Scatterplots, IEEE Transactions on Visualization and Computer Graphics, vol.14, issue.6, 2008. ,
DOI : 10.1109/TVCG.2008.119
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.154.5971
Critical Points and Curvature for Embedded Polyhedral Surfaces, The American Mathematical Monthly, vol.77, issue.5, 1970. ,
DOI : 10.2307/2317380
Simplexmesh: A simplicial mesh structure that supports general non-manifold meshes and associated data. https://github.com/ christopherbatty, pp.2017-2018 ,
PHAT -persistent homology algorithms toolbox, ICMS, 2014. ,
DOI : 10.1016/j.jsc.2016.03.008
Optimal Topological Simplification of Discrete Functions on Surfaces, Discrete & Computational Geometry, vol.33, issue.2, 2012. ,
DOI : 10.1007/s00454-011-9350-z
Vistrails: Enabling interactive multiple-view visualizations, IEEE VIS, 2005. ,
Reeb graphs for shape analysis and applications, Theoretical Computer Science, vol.392, issue.1-3, 2008. ,
DOI : 10.1016/j.tcs.2007.10.018
URL : http://doi.org/10.1016/j.tcs.2007.10.018
COMPACT REPRESENTATIONS OF SIMPLICIAL MESHES IN TWO AND THREE DIMENSIONS, International Journal of Computational Geometry & Applications, vol.21, issue.01, pp.3-24, 2005. ,
DOI : 10.1007/PL00008262
The Simplex Tree: An Efficient Data Structure for General Simplicial Complexes, Algorithmica, vol.132, issue.23, pp.406-427, 2014. ,
DOI : 10.1007/s00453-014-9887-3
URL : https://hal.archives-ouvertes.fr/hal-00707901
Building Efficient and Compact Data Structures for Simplicial Complexes, Symp. on Comp. Geom, 2015. ,
DOI : 10.1007/s00453-016-0207-y
URL : https://hal.archives-ouvertes.fr/hal-01145407
OpenMesh: A Generic and Efficient Polygon Mesh Data Structure, OpenSG, 2002. ,
Hybrid techniques for real-time radar simulation, Proceedings of the November 12-14, 1963, fall joint computer conference on XX, AFIPS '63 (Fall), 1963. ,
DOI : 10.1145/1463822.1463869
Interactive exploration and analysis of large scale simulations using topologybased data segmentation, IEEE Trans. on Vis. and Comp. Graph, 2011. ,
URL : https://hal.archives-ouvertes.fr/hal-01211172
The mesquite mesh quality improvement toolkit, IMR, 2003. ,
A persistence landscapes toolbox for topological statistics, Journal of Symbolic Computation, vol.78, 2017. ,
DOI : 10.1016/j.jsc.2016.03.009
URL : https://hal.archives-ouvertes.fr/hal-01258875
Zigzag persistent homology and real-valued functions, Proceedings of the 25th annual symposium on Computational geometry, SCG '09, 2009. ,
DOI : 10.1145/1542362.1542408
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.161.9241
Fiber Surfaces: Generalizing Isosurfaces to Bivariate Data, Computer Graphics Forum, vol.33, issue.3, 2015. ,
DOI : 10.1111/cgf.12636
URL : https://hal.archives-ouvertes.fr/hal-01198912
Computing contour trees in all dimensions, Computational Geometry, vol.24, issue.2, pp.918-926, 2000. ,
DOI : 10.1016/S0925-7721(02)00093-7
URL : http://doi.org/10.1016/s0925-7721(02)00093-7
Simplifying flexible isosurfaces using local geometric measures, IEEE Visualization 2004, 2004. ,
DOI : 10.1109/VISUAL.2004.96
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.106.1632
Vector field editing and periodic orbit extraction using morse decomposition, IEEE Trans. on Vis. and Comp. Graph, 2007. ,
VisIt, High Performance Visualization? Enabling Extreme-Scale Scientific Insight, pp.357-372, 2012. ,
DOI : 10.1201/b12985-21
Vivaldi: A Domain-Specific Language for Volume Processing and Visualization on Distributed Heterogeneous Systems, IEEE Transactions on Visualization and Computer Graphics, vol.20, issue.12, pp.2407-2416, 2014. ,
DOI : 10.1109/TVCG.2014.2346322
MeshLab: an Open-Source Mesh Processing Tool, Eurographics Italian Chapter Conference The Eurographics Association, 2008. ,
Stability of persistence diagrams, Symp. on Comp. Geom, 2005. ,
DOI : 10.1145/1064092.1064133
Morse complexes for shape segmentation and homological analysis: discrete models and algorithms, Computer Graphics Forum, vol.32, issue.3, 2015. ,
DOI : 10.1111/cgf.12596
Persistent cohomology and circular coordinates, Disc. Compu. Geom, 2011. ,
Computing Topological Persistence for Simplicial Maps, Annual Symposium on Computational Geometry, SOCG'14, 2014. ,
DOI : 10.1145/2582112.2582165
URL : http://arxiv.org/abs/1208.5018
A contour tree library, 2007. ,
Output-Sensitive Construction of Reeb Graphs, IEEE Transactions on Visualization and Computer Graphics, vol.18, issue.1, 2012. ,
DOI : 10.1109/TVCG.2011.37
Computing Reeb Graphs as a Union of Contour Trees, IEEE Transactions on Visualization and Computer Graphics, vol.19, issue.2, 2013. ,
DOI : 10.1109/TVCG.2012.115
Recon (Reeb graph computation ), 2014. ,
LibRG (Reeb graph computation ) ,
Jacobi sets of multiple morse functions, Foundations of Computational Mathematics, 2004. ,
Computational Topology: An Introduction, 2009. ,
DOI : 10.1090/mbk/069
Morse-smale complexes for piecewise linear 3-manifolds, Proceedings of the nineteenth conference on Computational geometry , SCG '03, 2003. ,
DOI : 10.1145/777792.777846
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.14.9592
Reeb spaces of piecewise linear mappings, Proceedings of the twenty-fourth annual symposium on Computational geometry , SCG '08, 2008. ,
DOI : 10.1145/1377676.1377720
Topological persistence and simplification, Disc. Compu. Geom, 2002. ,
DOI : 10.1109/sfcs.2000.892133
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.12.8802
Persistence-sensitive simplification functions on 2-manifolds, Proceedings of the twenty-second annual symposium on Computational geometry , SCG '06, pp.127-134, 2006. ,
DOI : 10.1145/1137856.1137878
Simulation of simplicity: a technique to cope with degenerate cases in geometric algorithms, ACM Trans. on Graph, 1990. ,
Introduction to the R package TDA ,
URL : https://hal.archives-ouvertes.fr/hal-01113028
Visualizing ensembles of viscous fingers, IEEE SciVis Contest, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01359694
Data structures for simplicial complexes: An analysis and A comparison, EG Symp. on Geom. Proc, 2005. ,
A user's guide to discrete Morse theory, Adv. in Math, 1998. ,
Visual Exploration of High Dimensional Scalar Functions, IEEE Transactions on Visualization and Computer Graphics, vol.16, issue.6, 2010. ,
DOI : 10.1109/TVCG.2010.213
msr: Morse-smale approximation, regression and visualization. https://cran.r-project, 2015. ,
DOI : 10.1080/10618600.2012.657132
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3653333
Characterizing Molecular Interactions in Chemical Systems, IEEE Transactions on Visualization and Computer Graphics, vol.20, issue.12, 2014. ,
DOI : 10.1109/TVCG.2014.2346403
URL : https://hal.archives-ouvertes.fr/hal-01146475
Mandatory Critical Points of 2D Uncertain Scalar Fields, Computer Graphics Forum, vol.3, issue.3, 2014. ,
DOI : 10.1111/cgf.12359
URL : https://hal.archives-ouvertes.fr/hal-01206152
Contour forests: Fast multi-threaded augmented contour trees, 2016 IEEE 6th Symposium on Large Data Analysis and Visualization (LDAV), 2016. ,
DOI : 10.1109/LDAV.2016.7874333
URL : https://hal.archives-ouvertes.fr/hal-01355328
Differential Topology, 1974. ,
DOI : 10.1090/chel/370
SQuad: Compact Representation for Triangle Meshes, Computer Graphics Forum, vol.24, issue.3, 2011. ,
DOI : 10.1111/j.1467-8659.2011.01866.x
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.398.2050
Zipper: A compact connectivity data structure for triangle meshes, Computer-Aided Design, vol.45, issue.2, 2013. ,
DOI : 10.1016/j.cad.2012.10.009
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.359.9073
Stability of Dissipation Elements: A Case Study in Combustion, Computer Graphics Forum, vol.608, issue.10, 2014. ,
DOI : 10.1111/cgf.12361
A Practical Approach to Morse-Smale Complex Computation: Scalability and Generality, IEEE Transactions on Visualization and Computer Graphics, vol.14, issue.6, 2008. ,
DOI : 10.1109/TVCG.2008.110
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.154.8602
Computing Morse-Smale Complexes with Accurate Geometry, IEEE Transactions on Visualization and Computer Graphics, vol.18, issue.12, 2012. ,
DOI : 10.1109/TVCG.2012.209
Conforming Morse-Smale Complexes, IEEE Transactions on Visualization and Computer Graphics, vol.20, issue.12, 2014. ,
DOI : 10.1109/TVCG.2014.2346434
URL : https://hal.archives-ouvertes.fr/hal-01146478
Interstitial and Interlayer Ion Diffusion Geometry Extraction in Graphitic Nanosphere Battery Materials, IEEE Transactions on Visualization and Computer Graphics, vol.22, issue.1, 2015. ,
DOI : 10.1109/TVCG.2015.2467432
Topologically Clean Distance Fields, IEEE Transactions on Visualization and Computer Graphics, vol.13, issue.6, 2007. ,
DOI : 10.1109/TVCG.2007.70603
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.124.8894
A Survey of Topology-based Methods in Visualization, Computer Graphics Forum, vol.11, issue.4, 2016. ,
DOI : 10.1109/TVCG.2005.67
Towards Multifield Scalar Topology Based on Pareto Optimality, Computer Graphics Forum, vol.12, issue.2, pp.341-350, 2013. ,
DOI : 10.1111/cgf.12121
3D triangulation data structure, CGAL User and Reference Manual, 2016. ,
Data Structures for Multiresolution Representation of Unstructured Meshes, Hierarchical and Geometrical Methods in Scientific Visualization, 2003. ,
DOI : 10.1007/978-3-642-55787-3_9
Diderot: a Domain-Specific Language for Portable Parallel Scientific Visualization and Image Analysis, IEEE Transactions on Visualization and Computer Graphics, vol.22, issue.1, 2016. ,
DOI : 10.1109/TVCG.2015.2467449
Fast and Exact Fiber Surfaces for Tetrahedral Meshes, IEEE Transactions on Visualization and Computer Graphics, 2016. ,
DOI : 10.1109/TVCG.2016.2570215
URL : https://hal.archives-ouvertes.fr/hal-01206120
Understanding the Structure of the Turbulent Mixing Layer in Hydrodynamic Instabilities, IEEE Transactions on Visualization and Computer Graphics, vol.12, issue.5, 2006. ,
DOI : 10.1109/TVCG.2006.186
Grouper: A Compact, Streamable Triangle Mesh Data Structure, IEEE Transactions on Visualization and Computer Graphics, vol.20, issue.1, pp.84-98, 2014. ,
DOI : 10.1109/TVCG.2013.81
The Gudhi Library: Simplicial Complexes and Persistent Homology, ICMS, 2014. ,
DOI : 10.1007/978-3-662-44199-2_28
URL : https://hal.archives-ouvertes.fr/hal-01005601
Scout: a data-parallel programming language for graphics processors, Parallel Computing, vol.33, issue.10-11, pp.648-662, 2007. ,
DOI : 10.1016/j.parco.2007.09.001
Morse Theory for Filtrations and Efficient Computation of Persistent Homology, Discrete & Computational Geometry, vol.37, issue.10, 2013. ,
DOI : 10.1007/s00454-013-9529-6
A survey of visualization pipelines Accessed, IEEE Trans. on Vis. and Comp. Graph, pp.2016-2025, 2010. ,
Perseus, the persistent homology software, pp.2016-2025 ,
A deterministic o(m log m) time algorithm for the reeb graph, Symp. on Comp. Geom, 2012. ,
Robust on-line computation of Reeb graphs: simplicity and speed, ACM Trans. on Graph, 2007. ,
2D triangulation data structure, CGAL User and Reference Manual. CGAL Editorial Board, 2016. ,
ViSlang: A System for Interpreted Domain-Specific Languages for Scientific Visualization, IEEE Transactions on Visualization and Computer Graphics, vol.20, issue.12, 2014. ,
DOI : 10.1109/TVCG.2014.2346318
Sur les points singuliers d'une forme de Pfaffcompì etement intégrable ou d'une fonction numérique Theory and algorithms for constructing discrete morse complexes from grayscale digital images, Acad. des Sci. IEEE Trans. on Pat. Ana. and Mach. Int, 1946. ,
Methods and framework for visualizing higher-order finite elements, IEEE Transactions on Visualization and Computer Graphics, vol.12, issue.4, 2006. ,
DOI : 10.1109/TVCG.2006.74
The Visualization Toolkit ,
DOI : 10.1016/B978-012387582-2/50032-0
SCIRun: A Scientific Computing Problem Solving Environment, Scientific Computing and Imaging Institute (SCI), Download from, 2016. ,
Parallel Computation of 2D Morse-Smale Complexes, IEEE Transactions on Visualization and Computer Graphics, vol.18, issue.10, 2012. ,
DOI : 10.1109/TVCG.2011.284
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.225.4880
Parallel computation of 3d morsesmale complexes, Comp. Graph. For, 2012. ,
DOI : 10.1111/j.1467-8659.2012.03089.x
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.225.4880
Efficient software for programmable visual analysis using morse-smale complexes, TopoInVis, 2015. ,
Felix: A Topology Based Framework for Visual Exploration of Cosmic Filaments, IEEE Transactions on Visualization and Computer Graphics, vol.22, issue.6, 2016. ,
DOI : 10.1109/TVCG.2015.2452919
Design, implementation, and evaluation of the surface mesh data structure, IMR, 2011. ,
Topological methods for the analysis of high dimensional data sets and 3d object recognition, SPBG, pp.91-100, 2007. ,
Critical Point Cancellation in 3D Vector Fields: Robustness and Discussion, IEEE Transactions on Visualization and Computer Graphics, vol.22, issue.6, 2016. ,
DOI : 10.1109/TVCG.2016.2534538
Time-varying contour topology, IEEE Transactions on Visualization and Computer Graphics, vol.12, issue.1, 2006. ,
DOI : 10.1109/TVCG.2006.16
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2703823
The persistent cosmic web and its filamentary structure - I. Theory and implementation, Monthly Notices of the Royal Astronomical Society, vol.414, issue.1, 2011. ,
DOI : 10.1111/j.1365-2966.2011.18394.x
URL : http://arxiv.org/abs/1009.4014
) steps, Proceedings of the fourteenth annual symposium on Computational geometry , SCG '98, 1998. ,
DOI : 10.1145/276884.276892
Multiscale Symmetry Detection in Scalar Fields by Clustering Contours, IEEE Transactions on Visualization and Computer Graphics, vol.20, issue.12, 2014. ,
DOI : 10.1109/TVCG.2014.2346332
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.650.8489
Jacobi Fiber Surfaces for Bivariate Reeb Space Computation, IEEE Transactions on Visualization and Computer Graphics, vol.23, issue.1, 2016. ,
DOI : 10.1109/TVCG.2016.2599017
URL : https://hal.archives-ouvertes.fr/hal-01349907
Loop surgery for volumetric meshes: Reeb graphs reduced to contour trees, IEEE Transactions on Visualization and Computer Graphics, vol.15, issue.6, 2009. ,
DOI : 10.1109/TVCG.2009.163
URL : https://hal.archives-ouvertes.fr/hal-01211176
Generalized Topological Simplification of Scalar Fields on Surfaces, IEEE Transactions on Visualization and Computer Graphics, vol.18, issue.12, 2012. ,
DOI : 10.1109/TVCG.2012.228
URL : https://hal.archives-ouvertes.fr/hal-01206877
Contour trees and small seed sets for isosurface traversal, Proceedings of the thirteenth annual symposium on Computational geometry , SCG '97, 1997. ,
DOI : 10.1145/262839.269238
Conformal factor persistence for fast hierarchical cone extraction, Eurographics, p.2017 ,
URL : https://hal.archives-ouvertes.fr/hal-01508966
Topologycontrolled volume rendering, IEEE Trans. on Vis. and Comp. Graph, 2007. ,
Edge-based data structures for solid modeling in curvedsurface environments, IEEE Computer Graphics and Applications, 1985. ,
The PR-star octree, Proceedings of the 19th ACM SIGSPATIAL International Conference on Advances in Geographic Information Systems, GIS '11, 2011. ,
DOI : 10.1145/2093973.2093987
A primal/dual representation for discrete Morse complexes on tetrahedral meshes, Computer Graphics Forum, vol.30, issue.8, 2013. ,
DOI : 10.1111/cgf.12123
The tidy set, Proceedings of the 2010 annual symposium on Computational geometry, SoCG '10, 2010. ,
DOI : 10.1145/1810959.1811004
Computing persistent homology, Disc. Compu. Geom, 2005. ,
DOI : 10.1145/997817.997870
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.10.5064
Discrete gradient pairing obtained with Alg. 1 in 3D in the star of a PL 1-saddle (left), 2-saddle (center) and maximum (right) Vertex-edge, edge-triangle and triangle-tetrahedron pairs are shown with blue, white and green balls-and-sticks. Only a few pairs is shown to avoid occlusion ,