MorphoLibJ:​ integrated library and plugins for mathematical morphology with ImageJ

Legland, David<sup>1,2,3</sup>; Arganda-Carreras, Ignacio<sup>2,4,5,6</sup>; Andrey, Philippe<sup>1,7</sup>

Affiliations

¹UR1268 Biopolymers, Interactions and Assemblies, INRA, Nantes, France

²Institut Jean-Pierre Bourgin, INRA, AgroParisTech, CNRS, Université Paris-Saclay, Versailles, Cedex, RD10, 78026, France

³UMR782 Food Process Engineering and Microbiology, INRA, AgroParisTech, Thiverval-Grignon, France

⁴Basque Foundation for Science, Ikerbasque, Bilbao, 48013, Spain

⁵Computer Science and Artificial Intelligence Department, Basque Country University (UPV/EHU), Donostia-San Sebastian, 20018, Spain

⁶Donostia International Physics Center (DIPC), Donostia-San Sebastian, 20018, Spain

⁷Sorbonne Universités, UPMC Univ Paris 06, UFR 927, Paris, France

Abstract and keywords

Motivation: Mathematical morphology (MM) provides many powerful operators for processing 2D and 3D images. However, most MM plugins currently implemented for the popular ImageJ/Fiji platform are limited to the processing of 2D images.

Results: The MorphoLibJ library proposes a large collection of generic tools based on MM to process binary and grey-level 2D and 3D images, integrated into user-friendly plugins. We illustrate how MorphoLibJ can facilitate the exploitation of 3D images of plant tissues.

Availability and Implementation: MorphoLibJ is freely available at http://imagej.net/MorphoLibJ

Contact: david.legland@nantes.inra.fr

Supplementary information: Supplementary data are available at Bioinformatics online.

Keywords:

Links

DOI: 10.1093/bioinformatics/btw413

PubMed: 27412086

WoS: 000392748700031

History

Received: 2016-02-12

Revised: 2016-05-20

Accepted: 2016-06-19

Cited Works (1)

Year	Entry
2012	Schindelin J, Arganda-Carreras I, Frise E, Kaynig V, Longair M, Pietzsch T, Preibisch S, Rueden C, Saalfeld S, Schmid B, Tinevez J-Y, White DJ, Hartenstein V, Eliceiri K, Tomancak P, Cardona A. Fiji: an open-source platform for biological-image analysis. Nat Methods. June 28, 2012;9(7):676-682.

Cited By (3)

Year	Entry
2017	Rueden CT, Schindelin J, Hiner MC, DeZonia BE, Walter AE, Arena ET, Eliceiri KW. ImageJ2: ImageJ for the next generation of scientific image data. BMC Bioinformatics. November 29, 2017;18:529.
2023	Tinguely Y, Shi V, Klatte-Schulz F, Duda GN, Freedman BR, Mooney DJ. Aging and injury affect nuclear shape heterogeneity in tendon. J Orthop Res. October 2023;41(10):2186-2194.
2019	Livingston E. Morphological and Mechanical Analysis of the Porous Structure of Cortical Bone [Master's thesis]. University of Illinois at Urbana-Champaign; 2019.