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FLEYE is a package of ImageJ macros developed to classify fly eyes attending to the distribution of their ommatidia using images of the eye surface as starting data.

Cristina Rueda Sabater, Sergio Díez Hermano, Diego Sánchez Romero, María Dolores Ganfornina Álvarez and Jorge Valero Gómez-Lobo (jorge.valero@cnc.uc.pt)

The FLEYE package includes three ImageJ macros that will allow the user to:

• 1.- select in each image the regions of interest (ROI) for analysis,
• 2.- optimize parameters
• 3.- and analyze the images.

FLEYE package contains three macros created to:

1.- Sequentially design ROIs in the images to select the area to be analyzed (Fleye rois).

2.- Optimize parameters: rolling ball radius and Find Maxima noise Tolerance (Fleye optimizer).

3.- Analyze ommatidia (Fleye analyzer) using the model published in “Diez-Hermano, Valero J, Rueda C, Ganfornina MD and Sanchez D. An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model. Molecular Neurodegeneration 2015, 10:9 (DOI 10.1186/s13024-015-0005-z)”.

Unzip the fleye2_2.zip or individual macro files into the plugins folder of FIJI.

To solve the issue of malfunction due to FIJI updates we have also included the version of FIJI used when developing FLEYE plugin in FIJI_with_FLEYE.zip files (available for Win32 and Win64).

Compressed packages:

• Compressed FLEYE package: fleye2_2.zip
• FIJI version for Windows 32 bits with FLEYE: fiji-win32_with_fleye.zip
• FIJI version for Windows 64 bits with FLEYE: fiji-win64_withfleye.zip

Uncompressed macros:

• Fleye menu: fleye_menu_v2.2.ijm
• Fleye rois: fleye_roisv1.3.ijm
• Fleye optimizer: fleye_optimizer_v4.3.ijm
• Fleye analyzer: fleye_v10.5.ijm

Guides:

• Quick guide: fleye_quick_guide.pdf
• User manual: fleye_guide.pdf

Old versions:

• Fleye menu: fleye_menu_v2.ijm
• Fleye rois: fleye_roisv1.2.ijm
• Fleye optimizer: fleye_optimizer_v4.2.ijm
• Fleye analyzer: fleye_v10.4.ijm

• Diez-Hermano, Valero J, Rueda C, Ganfornina MD and Sanchez D. An automated image analysis method to measure regularity in biological patterns: a case study in a Drosophila neurodegenerative model. Molecular Neurodegeneration 2015, 10:9 (DOI 10.1186/s13024-015-0005-z)

GNU General Public License FLEYE is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

FLEYE is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

Copyright (C) 2014 Cristina Rueda Sabater, Sergio Díez Hermano, Diego Sánchez Romero, María Dolores Ganfornina Álvarez and Jorge Valero Gómez-Lobo (jorge.valero@cnc.uc.pt).

New versions:

fleye2_2.zip

Fleye menu: fleye_menu_v2.2.ijm Fleye rois: fleye_roisv1.3.ijm Fleye optimizer: fleye_optimizer_v4.3.ijm Fleye analyzer: fleye_v10.5.ijm

Change in Bioformats importer options (autoscale added) to solve some problems when opening images with FIJI running ImageJ version 1.49u.

fleye_optimizer_v4.3.ijm

fleye_v10.5.ijm

Spelling correction in parameters menu