The IMOD Home Page IMOD is a set of image processing, modeling and display programs used for tomographic reconstruction and for 3D reconstruction of EM serial sections and optical sections The package contains tools for assembling and aligning data within multiple types and sizes of image stacks, viewing 3-D data from any orientation, and modeling and display of the image files IMOD was developed primarily by
IMOD Tomography Guide - University of Colorado Boulder IMOD 4 11 provides new flexibility with regard to the parameters of a tilt series Originally, the algorithm and parameters in Beadtrack were tuned to operate well over a certain range of bead sizes and with tilt intervals of about 2 or less
IMOD Users Guide - University of Colorado Boulder 1 Installation All of the IMOD programs are available via the IMOD Download Page The distribution is bundled together using the tar program with gzip compression, then placed in a file after a shell script that can extract and install the programs For Windows and Mac, there is an executable installer than runs this script; for Linux you need to run the script yourself at the command line
IMOD Download - University of Colorado Boulder IMOD Download Page IMOD is free We do however request a few things from you to help with the IMOD development Join the IMOD mailing list to get notifications about new releases and trainings, or the IMOD discussion list, where many questions are raised and answered These lists also help us keep track of the interest in IMOD
IMOD Tomography Guide - Advanced Topics As of IMOD 3 8 26, both sets of parameters can be present and will be properly taken into account when Solvematch uses the fiducial coordinates to obtain the initial transformation between dual-axis tomograms Final Aligned Stack There is one parameter that can be adjusted to affect the results at this stage, the angle of the tilt axis
Serial Section Alignment with IMOD - University of Colorado Boulder Warping transformations in IMOD are specified by a set of shifts between images at a collection of points The interface supports two different methods of aligning images: automatically by image correlations with Xfalign, or manually by displaying pairs of images in Midas
IMOD, PEET, and SerialEM from the Mastronarde Group IMOD is a group of programs for 3D reconstruction, and modeling, and analysis PEET Home Page Download PEET performs alignment, averaging and classification of 3D subvolumes SerialEM Home Page Download SerialEM is software package for data acquisition from electron microscopes Shape Download Shape interfaces with IMOD to automate segmentation of
Computer Visualization of Three-Dimensional Image Data Using IMOD. We have developed a computer software package, IMOD, as a tool for analyzing and viewing three-dimensional biological image data IMOD is useful for studying and modeling data from tomographic, serial section, and optical section reconstructions The software allows image data to be visualized by several different methods Models of the image data can be visualized by volume or contour surface