Fig. 1
From: MuscleJ: a high-content analysis method to study skeletal muscle with a new Fiji tool
Overview of the MuscleJ workflow and feature pipeline. a Images of the multi-system panel represent the same muscle section acquired by different microscopes: Apotome (Zeiss-25X), Confocal LSM700 (Zeiss-25X), Spinning Disk CV1000 (Yokogawa-20X), and Scale Bar (SB) equals 400 μm. Part of the image appears at higher magnification in white outline, SB equals 200 μm. In the multi-channels panel, images were obtained from the AxioscanZ1 (Zeiss-20X) and muscle sections, with different staining are represented by slide and section. SB equal respectively to 500 μm. b Representation of the MuscleJ organigram. c Automatic detection of different region of interest (ROI) of skeletal muscle fibers, based on laminin staining (gray), corresponding to regions in which several parameters are analyzed (F fiber, CNF centronucleated fiber, SC satellite cell, V vessels). ROICNF, ROISC and ROIV are proportional to the minimum Feret diameter of fibers (− 1/5, − 1/5 and + 1/8 respectively). SB equals 20 μm. d List of the different outputs obtained from MuscleJ, per image, feature, fiber, or nucleus (Nb Number)