TeraStitcher - A tool for fast automatic 3D-stitching of teravoxel-sized microscopy images

BMC Bioinformatics

Volumn 13, Issue 1, 2012, Pages

  Bria, Alessandro ^a,b   Iannello, Giulio ^a  

^a UNIVERSITY CAMPUS BIO MEDICO   (Italy)

^b UNIVERSITY OF CASSINO AND SOUTHERN LAZIO   (Italy)

Author keywords

3D images; Brain imaging; Microscopy; Stitching; Teravoxel sized images

Indexed keywords

3-D IMAGE; BRAIN IMAGING; FREE SOFTWARE; FREE TOOLS; FULLY AUTOMATED; HIGH RESOLUTION; LARGE DATASETS; LARGE IMAGES; MEMORY RESOURCES; MEMORY USAGE; MICROSCOPY IMAGES; MOUSE BRAIN; MULTI RESOLUTION REPRESENTATION; ORDERS OF MAGNITUDE; PLUG-INS; PROCESSING POWER; SOFTWARE SOLUTION; STANDALONE APPLICATIONS; TERAVOXEL-SIZED IMAGES;

ALGORITHMS; APPLICATION PROGRAMS; IMAGE MATCHING; MICROSCOPIC EXAMINATION; STITCHING (METAL JOINING); THREE DIMENSIONAL COMPUTER GRAPHICS;

THREE DIMENSIONAL;

ALGORITHM; ANIMAL; ARTICLE; COMPUTER PROGRAM; METHODOLOGY; MICROSCOPY; MOUSE; THREE DIMENSIONAL IMAGING;

ALGORITHMS; ANIMALS; IMAGING, THREE-DIMENSIONAL; MICE; MICROSCOPY; SOFTWARE;

MLCS; MLOWN;

EID: 84869870968     PISSN: None     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-13-316     Document Type: Article

References (9)

1. Preibisch S, Saalfeld S, Tomancak P. Globally optimal stitching of tiled 3D microscopic image. Bioinformatics 2009, 25(11):1463-1465. 10.1093/bioinformatics/btp184, 2682522, 19346324.
2. Emmenlauer M, Ronneberger O, Ponti A, Schwarb P, Griffa A, Filippi A, Nitschke R, Driever W, Burkhardt H. XuvTools: free, fast and reliable stitching of large 3D datasets. J Micros 2009, 233:42-60.
3. Yu Y, Peng H. Automated high speed stitching of large 3D microscopic images. Proceedings of IEEE 2011 International Symposium on Biomedical Imaging: From Nano to Macro: March 30-april 2 2011, 238-241. Chicago.
4. Keller P, Dodt H. Light sheet microscopy of living or cleared specimens. Curr Opin Neurobiology 2012, 222:138-143.
5. Verveer P, Swoger J, Pampaloni F, Greger K, Marcello M, Stelzer E. High-resolution three dimensional imaging of large specimens with light sheet based microscopy. Nat Methods 2007, 4:311-313.
6. Dodt H, Leischner U, Schierloh A, Jährling N. Ultramicroscopy: three-dimensional visualization of neuronal networks in the whole mouse brain. Nat Methods 2007, 4:331-336. 10.1038/nmeth1036, 17384643.
7. Silvestri L, Bria A, Sacconi L, Iannello G, Pavone F. Confocal light sheet microscopy: micron-scale neuroanatomy of the entire mouse brain. Optic Express 2012, 20(18):20582-20598.
8. Gamma E, Helm R, Johnson R, Vlissides J. Elements of Reusable Object-Oriented Software 1995, Addison-Wesley Boston: Longman Publishing Co..
9. Peng H, Ruan Z, Long F, Simpson J, Myers E. V3D enables real-time 3D visualization and quantitative analysis of large-scale biological image data sets. Nat Biotechnol 2010, 28(4):348-353. 10.1038/nbt.1612, 2857929, 20231818.