Into ImgLib—Generic image processing in Java

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Proceedings of the ImageJ User and Developer Conference. 2012 Oct 27

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Into ImgLib—Generic image processing in Java Saalfeld Lab

Preibisch S, Tomancak P, Saalfeld S

Note: Research in this publication was not performed at Janelia.

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Abstract

The purpose of ImgLib, a Generic Java Image Processing Library, is to provide an abstract framework enabling Java developers to design and implement data processing algorithms without having to consider dimensionality, type of data (e. g. byte, float, complex float), or strategies for data access (e. g. linear arrays, cells, paged cells). This kind of programming has significant advantages over the classical way. An algorithm written once for a certain class of Type will potentially run on any compatible Type, even if it does not exist yet. Same applies for data access strategies and the number of dimensions.
We achieve this abstraction by accessing data through Iterators and Type interfaces. Iterators guarantee efficient traversal through pixels depending on whether random coordinate access is required or just all pixels have to be visited once, whether real or integer coordinates are accessed, whether coordinates outside of image boundaries are accessed or not. Type interfaces define the supported operators on pixel values (like basic algebra) and hide the underlying basic type from algorithm implementation.

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Into ImgLib—Generic image processing in Java

Note: Research in this publication was not performed at Janelia.

Abstract