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Revision 39 as of 2013-08-11 18:07:53
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Editor: SteveLudtke
Revision 40 as of 2013-08-11 18:12:07
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Editor: SteveLudtke
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 * [[Eman2DataStorage|File Formats, Data storage conventions]]
 * [[Eman2NFS|Using EMAN2 in environments with NFS or other network-shared directories]]
 * [[Eman2DataStorage|Supported image file formats and usage]]
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 * [[Eman2Metadata|Parameters/Metadata appearing in EMData attributes (and stored on disk with the image), accessed with get_attr and set_attr]]
 * [[Eman2InfoMetadata|Parameters/Metadata associated with projects stored in the ''info'' folder]]
 * [[Eman2Metadata|Header information stored within image files]]
 * [[Eman2InfoMetadata|Information stored in JSON files in the ''info/'' folder and elsewhere]]

EMAN2 Concepts and Conventions

Data Storage

Mathematical Conventions

Modular functions in EMAN2

Many aspects of EMAN2 are modular, meaning new functions can be easily added for a variety of tasks. These categories are used in the GUI and from the command-line, and are not just useful for programmers. For example, the '--process' option in and uses 'processors' as defined below.

  • Overview of how to use modular functions

  • Processors - Filters, masks and other basic image processing operations

  • Comparators (cmp) - Similarity metrics (cmp) for comparing two images/volumes

  • Aligners - Algorithms for aligning one image/volume to another

  • Averagers - Methods for averaging many images/volumes together

  • Projectors - Generate 2-D projections of 3-D volumes (or 1-D projections of 2-D images)

  • Reconstructors - Generate 3-D volumetric reconstructions from sets of 2-D images and orientation paramters

  • Analyzers - Perform various analyses on sets of images/volumes

  • Symmetries - Permissible symmetries to use in EMAN2

  • Orientation Generators (orientgen) - Methods for generating sets of orientations filling an asymmetric unit


EMAN2/Concepts (last edited 2018-10-08 13:00:17 by SteveLudtke)