EBImage-package           package:EBImage           R Documentation

_P_a_c_k_a_g_e _o_v_e_r_v_i_e_w

_D_e_s_c_r_i_p_t_i_o_n:

     'EBImage' is the image processing and analysis package for R. Its
     primary  goal is to enable automated analysis of large sets of
     images such as those obtained in high throughput automated
     microscopy.

     The package uses 'ImageMagick' library for image I/O operations
     and for many image processing routines. Algorithms for image
     analysis are implemented natively including algorithms for feature
     extraction.

     Image data are stored in objects of the class 'Image', which is
     derived as an S4 class from 'array' and inherits all of its 
     properties and methods.

     The project page is <URL: http://www.ebi.ac.uk/~osklyar/EBImage>

_P_a_c_k_a_g_e _c_o_n_t_e_n_t:

     Classes


        *  Class 'Image', its accessor method

        *  Class 'IndexedImage'

        *  Common generic methods for class 'Image'

        *  'Image' object creation, copying and assertion

        *  Image read/write operations

     Image processing


        *  Enhancing images and colors

        *  Image color manipulation

        *  Generate a tiled image from a stack

        *  Image and color channel thresholding

        *  Image transformation, rotation, resize etc.

        *  Noise removal, blurring and smoothing of images

     Image analysis


        *  Distance map transform of binary images

        *  Morphological trasnsformations of binary images

        *  Segmentation and edge detection

        *  Voronoi-based segmentation on image manifolds

        *  Watershed transformation and watershed-based object
           detection

     Feature extraction


        *  Extraction of Haralick texture features and co-occurance
           matrices (GLCM)

        *  Extraction of edge profiles and edge features

        *  Extraction of hull features

        *  Extraction of Zernike moments

        *  Extraction of image moments and moment invariants

        *  Combined feature extraction for objects in indexed images

        *  Object removal in indexed images

        *  Marking detected objects in indexed images

        *  Generate a stack of images for detected objects

        *  Matching objects in two indexed images

     Tools


        *  Color and image color mode conversions

        *  Drawing primitives on images, annotation

        *  Interactive image display

_A_u_t_h_o_r_s:

     Oleg Sklyar, osklyar@ebi.ac.uk, Copyright 2005-2007

     Wolfgang Huber, huber@ebi.ac.uk

     Mike Smith, msmith@ebi.ac.uk


       European Bioinformatics Institute
       European Molecular Biology Laboratory
       Wellcome Trust Genome Campus
       Hinxton 
       Cambridge CB10 1SD
       UK

     The code of 'propagate' is based on the 'CellProfiler'  with
     permission granted to distribute this particular part under LGPL,
     the  corresponding copyright (Jones, Carpenter) applies.

     The source code is released under 'LGPL' (see the 'LICENSE'  file
     in the package root for the complete license wording).
     'ImageMagick'  and 'GTK' used from the package are distributed
     separately by the  respective copyright holders.


       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>

