Differences

This shows you the differences between two versions of the page.

--- docs:documentation [2010/02/20 10:48]
mario added links to posters
+++ docs:documentation [2010/05/02 20:34] (current)
mario added Cheatsheet
@@ Line 1: / Line 1: @@
-====== End User Documentation ======
+====== Papers and Talks on XuvTools ======
 You can find our paper on stitching here:
@@ Line 7: / Line 7: @@
 We also presented stitching with XuvTools with the following posters:
-   * M. Emmenlauer, O. Ronneberger, H. Burkhardt, A. Ponti, P. Schwarb, R. Nitschke, and W. Driever. "XuvTools: Fast and reliable stitching of large 3D datasets". //European Light Microscopy Initiative ELMI//, 2008
+   * M. Emmenlauer, O. Ronneberger, H. Burkhardt, A. Ponti, P. Schwarb, R. Nitschke, and W. Driever. XuvTools: Fast and reliable stitching of large 3D datasets. //European Light Microscopy Initiative ELMI//, 2008
-     * Poster [[http://lmb.informatik.uni-freiburg.de/people/emmenlau/Emmenlauer2008_ELMI-Poster_XuvTools_Fast_and_reliable_stitching_of_large_3D_datasets.pdf|pdf]]
+     * Poster [[http://data.xuvtools.org/doc/Emmenlauer2008_ELMI-Poster_XuvTools_Fast_and_reliable_stitching_of_large_3D_datasets.pdf|pdf]]
+   * M. Emmenlauer and O. Ronneberger and M. Temerinac and H. Burkhardt and A. Filippi and R. Nitschke and W. Driever. Fast Automatic Recombination of Multiple 3D Datasets for Large Volumes and High Dynamic Range (HDR). //49th Symposium of the Society for Histochemistry//, 2007
+     * Poster [[http://data.xuvtools.org/doc/Emmenlauer2007_Fast_Automatic_Recombination_of_Multiple_3D_Datasets_for_Large_Volumes_and_High_Dynamic_Range.pdf|pdf]]
+   * M. Emmenlauer. Fast, reliable and automatic 3D alignment of confocal image stacks: Practical. //UTSA Workshop for Imaging in Neuron Biology//, 2010
+     * Talk [[http://data.xuvtools.org/doc/UTSA2010-MarioEmmenlauer-Prac.pdf|pdf]]
+====== XuvTools Cheatsheet - Highly Recommended ======
+A very condensed collection of XuvTools specifics and operation on one page. Includes some notes on microscope setup, and some general facts.
+   * [[http://data.xuvtools.org/doc/XuvTools-Cheatsheet_2010-04-29.pdf|XuvTools-Cheatsheet_2010-04-29.pdf]]
-   * M. Emmenlauer and O. Ronneberger and M. Temerinac and H. Burkhardt and A. Filippi and R. Nitschke and W. Driever. "Fast Automatic Recombination of Multiple 3D Datasets for Large Volumes and High Dynamic Range (HDR)". //49th Symposium of the Society for Histochemistry//, 2007
-     * Poster [[http://lmb.informatik.uni-freiburg.de/people/emmenlau/Emmenlauer2007_Fast_Automatic_Recombination_of_Multiple_3D_Datasets_for_Large_Volumes_and_High_Dynamic_Range.pdf|pdf]]
 ====== Video Tutorials - Highly Recommended ======
 <note tip>**The video tutorials are the recommended way to learn how to use XuvTools.** Please watch at least one before starting the software.</note>
+== Tutorial 1: A Basic Introduction ==
 {{ youtube>w5GaN3z2CRE?large }}
-   * Watch Video Tutorial 1 in high quality: [[http://data.xuvtools.org/video/video01.html|Stitching a 5-tile Metamorph STK data set]].
+   * Download Video Tutorial 1 in Flash file format: [[http://data.xuvtools.org/video/XuvStitch-08.07.24-Worm5-test03.swf|XuvStitch-08.07.24-Worm5-test03.swf]], 24MB (24750634 bytes)
-     * Download Video Tutorial 1 in Flash file format: [[http://data.xuvtools.org/video/XuvStitch-08.07.24-Worm5-test03.swf|XuvStitch-08.07.24-Worm5-test03.swf]], 24MB (24750634 bytes)
+   * Download Video Tutorial 1 in AVI file format: [[http://data.xuvtools.org/video/XuvStitch-08.07.24-Worm5-test03.avi|XuvStitch-08.07.24-Worm5-test03.avi]], 96MB (99546118 bytes)
-     * Download Video Tutorial 1 in AVI file format: [[http://data.xuvtools.org/video/XuvStitch-08.07.24-Worm5-test03.avi|XuvStitch-08.07.24-Worm5-test03.avi]], 96MB (99546118 bytes)
+== Tutorial 2: A Shorter Introduction ==
 {{ youtube>gHC2_QXOHoE?large }}
-   * Watch Video Tutorial 2 in high quality: [[http://data.xuvtools.org/video/video02.html|Stitching with the Grid Layout Tool]].
+   * Download Video Tutorial 2 in Flash file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-FlavioDarkborder-stitching02.swf|XuvStitch-09.12.06-FlavioDarkborder-stitching02.swf]], 9MB (8831417 bytes)
-     * Download Video Tutorial 2 in Flash file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.swf|XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.swf]], 9MB (8831417 bytes)
+   * Download Video Tutorial 2 in AVI file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-FlavioDarkborder-stitching02.avi|XuvStitch-09.12.06-FlavioDarkborder-stitching02.avi]], 117MB (122529686 bytes)
-     * Download Video Tutorial 2 in AVI file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.avi|XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.avi]], 117MB (122529686 bytes)
+== Tutorial 1: Stitching with the Layout Tool (Grids) ==
 {{ youtube>EVYnqNAGuj4?large }}
-   * Watch Video Tutorial 3 in high quality: [[http://data.xuvtools.org/video/video03.html|Stitching with the Grid Layout Tool]].
+   * Download Video Tutorial 3 in Flash file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.swf|XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.swf]], 20MB (20301934 bytes)
-     * Download Video Tutorial 3 in Flash file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.swf|XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.swf]], 20MB (20301934 bytes)
+   * Download Video Tutorial 3 in AVI file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.avi|XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.avi]], 102MB (106697330 bytes)
-     * Download Video Tutorial 3 in AVI file format: [[http://data.xuvtools.org/video/XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.avi|XuvStitch-09.12.06-TG52-stitching_with_gridlayout02.avi]], 102MB (106697330 bytes)
 ====== Download Test Data sets ======
-The following test data sets are provided in order to allow direct usage of XuvTools. We have tested stitching on these data sets and provide usage examples as well as run time measurements. If you want to quickly test XuvTools, download one or several of these data sets and give it a try. Note: due to traffic constraints we provide only small datasets in compressed Imaris format. Due to compression, these can take longer to load, which is not a limitation of XuvStitch.
+Test data sets can be found on the [[:datasets]] page.
-The supplied datasets are copyrighted by the respective owners. You may not distribute them or use them in any publication unless you get a written permission of the respective owner. You need to get a written permission of the respective owner for every usage other than for testing XuvTools on your own personal computer.
-| {{http://data.xuvtools.org/datasets/worm5stitch_001_sm.jpg}} | [[http://data.xuvtools.org/datasets/worm5_w1RGB-488nm-s6.ims|worm5_w1RGB-488nm-s6.ims]] | C. elegans worm | 6 Tiles, 1 channel, 261MB | by Peter Meister (1) |
-| {{http://data.xuvtools.org/datasets/To15100740xm_stitched_sm.jpg}} | [[http://data.xuvtools.org/datasets/To15100740xm.zip|To15100740xm.zip]] | Neuron filaments | 6 Tiles, 1 channel, 132MB | by Ivan Galimberti (2) |
-Dataset owner institute reference:
-   * (1) Group Susan Gasser Epigenetics, Friedrich Miescher Institute (FMI) for Biomedical Research (Part of Novartis Research Foundation), Basel, Switzerland
-   * (2) Group Pico Caroni Neuroscience, Friedrich Miescher Institute (FMI) for Biomedical Research (Part of Novartis Research Foundation), Basel, Switzerland