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| * [[EMAN2/Modular/Procesor|Processors]] - Filters, masks and other basic image processing operations | * [[EMAN2/Modular/Processors|Processors]] - Filters, masks and other basic image processing operations |
EMAN2 Concepts and Conventions
File Formats, Data storage conventions, and the internal database (what is BDB: ?)
Practical Advice on EMAN2 in environments with network-shared directories (like NFS)
Transformations in the context of projections, reconstructions, and in general
Parameters/Metadata for applications, not associated with a specific image, stored in bdb:project
Modular classes in EMAN2
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.
Similarity matrix image files (simmx_xx, simmx_stg1_xx, proj_simmx_xx)
3-D reconstructions (threed_xx, threed_filt_xx, threed_mask_xx)
