Xmipp is a suite of image processing programs, primarily aimed at single-particle 3D electron microscopy.
If you have used Xmipp in your work, please cite our papers as given in the List Of References.
Getting started Quick introduction to Xmipp. Good starting point to try out the new version. You will know the first steps to create a project and an overview ...
Xmipp , "X Window based Microscopy Image Processing Package", (J. Struct. Biol. 148(2), 194 204) is a suite of image processing programs, primarily aimed at single ...
Programming on Xmipp Package overview Reference Using core classes Learn how to use Image, ImageGeneric, MetaData, Program classes Parallel programming ...
SVN and GIT brief introduction GIT basic commands and equivalences to SVN In the next lines, we will try to explain equivalences from svn typical commands to git ...
xmipp phantom create (v3.0) Usage Create phantom volume from a feature description file. You may define a mathematical phantom from its geometrical features ...
List of all Xmipp programs v3.0 By Topic Global parameters Common options Options that are common to all Xmipp's programs Common files Description of most ...
File Formats These are the file formats used in Xmipp. The byte format is used when digitizing micrographs, once the particles have been selected from the micrographs ...
Header definition In the protocol header we will define the Python variables that will be used for protocol execution. The definition of such variables will contains ...
Known bugs and version history Current version: Version 3.0 Release date: Near Future Version 2.3 Release date: 13 4 2009 Known bugs 2.3 bug1: xmipp micrograph ...
Introduction Threading an application consists of dividing the computing load between different processes. This allows a more efficient usage of computing resources ...
C guidelines Source code is like the text of a book, it is possible to be understood with almost any formatting but much more easier if it is done properly. Forcing ...
Using Valgrind for memory check valgrind is a utility for detecting memory leaks, useful for detecting when are you triying to acees a memorythat has not been previously ...
xmipp xray psf create (v3.0) Usage Create a volume with the 3D PSF of an X ray microscope. A param file can be passed or directly setting the microscope parameters ...
xmipp xray project (v3.0) Usage Generate projections as in a X ray microscope from a 3D Xmipp volume. See also xray psf create xray import phantom create ...
xmipp xray import (v3.0) Usage Imports X ray micrographs with .spe extension This program converts a single axis tilt series coming from a X ray microscope ...
xmipp volume to pseudoatoms (v3.0) Usage Creates a set of pseudoatoms representing the density of an EM volume. This is useful for the vector quantization ...
xmipp volume reslice (v3.0) Usage Reslice a volume aligning any X or Y direction with Z axis. The output volume also has the dimensions rotated, so all the ...
xmipp volume enhance contrast (v3.0) Usage Enhance volume contrast by applying a non linear transformation to gray levels The contrast enhancement is based ...
xmipp volume correct bfactor (v3.0) Usage Sharpen a volume by applying a negative B factor The high resolution features are enhanced, thereby correcting ...
xmipp transform center image (v3.0) Usage Center a set of images (preferably with a good SNR, e.g., class averages). After calling the program, all classes ...
xmipp transform window (v3.0) Usage This program takes a region from the input images But... what is windowing? Let's suppose we have an image 32x32, ...
xmipp transform range adjust (v3.0) Usage Adjust the grey level value of the pixels to a specified range. See also transform normalize Parameters $ ...
xmipp transform normalize (v3.0) Usage Change the range of intensity values of pixels. In general, most of the methods requires a background to separate particles ...
xmipp transform morphology (v3.0) Usage Apply morphological operations to binary or gray images/volumes. You may learn about morphological operations in general ...
RSS feed, ATOM feed, WebNotify, site changes, site map 
Copyright © 2008-2012 by the contributing authors. All material on this collaboration platform is the property of the contributing authors. 
