EBImage-package           package:EBImage           R Documentation

_P_a_c_k_a_g_e _o_v_e_r_v_i_e_w _a_n_d _c_h_a_n_g_e_l_o_g

_D_e_s_c_r_i_p_t_i_o_n:

     'EBImage' is the image processing and analysis package for R. It
     is being created primarily to enable automated analysis of large
     sets of cytomicroscopy images, e.g. results of automated
     microscopy screens.

     The package uses 'ImageMagick' library for all of its I/O
     operations and for many image processing routines. It does not
     inteface all 'ImageMagick API' functions though. Algorithms for
     image analysis are implemented natively. These include distance
     maps, adaptive thresholding, object counting, watershed
     transformation etc.

     Image data are stored in objects of 'Image-class'. This S4 class
     is derived from 'array' and inherits all of its properties and S3
     methods, like mathematical operations on arrays, subsetting,
     histograms etc. Image processing and analysis routines require
     objects of 'Image-class' as input and often return objects of this
     class.

     The package provides many image processing filters that can be
     subdivided into the following categories: colour and image
     enhancement (e.g. 'enhance, contrast'), sharpening and noise
     reduction (e.g. 'denoise, despeckle'), image transformation (e.g.
     'rotate, resize'), image segmentation (e.g. 'watershed, propagate,
     edge, segment, thresh'), image morphology (e.g. 'dilate, opening,
     distmap'), and colour normalization ('normalize').

     Windows binary can be downloaded from:

     <URL: http://www.ebi.ac.uk/~osklyar/EBImage>

_C_h_a_n_g_e_l_o_g:


     * 1.9.26, 2007-02-08: Voronoi-based image segmentation
       - added propagate(): Voronoi-based segmentation on image
     manifolds
         with modified metric! Great thing for cell image segmentation

     * 1.9.25, 2007-02-02: (Critical) bug fixes
       - corrected memory leak in functions using ImageMagick filters:
         copied images were not deleted! Everyone should update!
       - disabled setting GTK locale. This solves problem with GTK
     reseting
         R locale and turning "." unusable on locales that use for
     example
         "," instead of a "." (like German).
       - added DestroyExceptionInfo() everywhere to ensure everything
         is cleaned up in the ImageMagick related code
       - welcome message is now printed only if getOption("verbose") is
     TRUE

     * 1.9.23, 2007-01-27: [,Image,numeric,missing now works as it
     should
       - long going problem with nargs() in this method is now solved

     * 1.9.20, 2007-01-07: animate
       - added (restored) animate()

     * 1.9.18, 2007-01-16: accircularity calculations in getObjects()
       - added acircularity and other related object descriptors

     * 1.9.01, 2006-12-29: New EBImage development release
       - new development version of EBImage, fully recoded. Now runs on
         Windows as well. The new code is much cleaner and less buggy,

     * Earlier modifications:
       - Jul 2006: morphological operators erode, dilate, opening,
     closing
       - Jun 2006: watershed-based object detection
       - Jun 2006: first full vignette
       - Apr 2006: first major restructuring, removing Image2D and
     Image3D
       - Apr 2006: EBImage first time in the Bioconductor release!
       - Mar 2006: ./configure script with autoconf


_A_u_t_h_o_r(_s):

     Copyright (c) 2005-2007 Oleg Sklyar: osklyar@ebi.ac.uk.

     Parts of the code by Wolfgang Huber: huber@ebi.ac.uk


       European Bioinformatics Institute
       European Molecular Biology Laboratory
       Wellcome Trust Genome Campus
       Hinxton, Cambridgeshire
       CB10 1SD
       England

     Released under 'LGPL' (see the 'LICENSE' file in the package root
     for the full license wording):


       This library is free software; you can redistribute
       it and/or modify it under the terms of the

       GNU Lesser General Public License

       as published by the Free Software Foundation; either
       version 2.1 of the License, or (at your option) any
       later version. This library 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 Lesser General Public License for more details.

     For LGPL license wording see <URL:
     http://www.gnu.org/licenses/lgpl.html>

