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 * [[Eman2NFS|Practical Advice on EMAN2 in environments with network-shared directories (like NFS)]]  * [[Eman2NFS|Using EMAN2 in environments with NFS or other network-shared directories]]
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=== Modular classes in EMAN2 === === 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 e2proc2d.py and e2proc3d.py uses 'processors' as
defined below.
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=== Information on specific files used in 2-D reference-free class-averaging ===
You may also wish to look at [[/EMAN2/programs/e2refine2d]]

 * input_fp
 * input_fp_basis
 * input_fp_basis_proj
 * classmx_00
 * classes_init
 * allrefs_XX
 * basis_XX
 * aliref_XX
 * simmx_XX
 * input_XX_proj
 * classmx_XX
 * classes_XX


EMAN2 Concepts and 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 e2proc2d.py and e2proc3d.py uses 'processors' as defined below.

  • 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

Information on specific files used in 3-D single particle refinement

This section documents the contents of all of the files produced by running e2refine.py in one of the refine_xx directories.

Information on specific files used in 2-D reference-free class-averaging

You may also wish to look at /EMAN2/programs/e2refine2d

  • input_fp
  • input_fp_basis
  • input_fp_basis_proj
  • classmx_00
  • classes_init
  • allrefs_XX
  • basis_XX
  • aliref_XX
  • simmx_XX
  • input_XX_proj
  • classmx_XX
  • classes_XX

single_image_iso_c.png

EMAN2/Concepts (last edited 2024-02-03 17:16:45 by SteveLudtke)