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| eman2:concepts [2025/06/19 03:24] – created steveludtke | eman2:concepts [2025/06/19 03:26] (current) – steveludtke |
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| ==== Data Storage ==== | ==== Data Storage ==== |
| * Supported [[Eman2DataStorage|image file formats]] and usage | * Supported [[EMAN2:DataStorage|image file formats]] and usage |
| * How EMAN2 stores data in [[EMAN2:Hdf5Format|HDF5 files]] | * How EMAN2 stores data in [[EMAN2:Hdf5Format|HDF5 files]] |
| * [[EMAN2:Eman2Metadata|Header information]] (key/value pairs) associated with a specific image | * [[EMAN2:EMAN2:Metadata|Header information]] (key/value pairs) associated with a specific image |
| * Information stored in [[Eman2InfoMetadata|JSON files]] in the //info/// folder and elsewhere | * Information stored in [[EMAN2:InfoMetadata|JSON files]] in the //info/// folder and elsewhere |
| * Setting local and global [[EMAN2:ApplicationPreferences|application preferences]] | * Setting local and global [[EMAN2:ApplicationPreferences|application preferences]] |
| * [[Eman2OtherFiles|Other misc. files]] such as .box and .lst | * [[EMAN2:OtherFiles|Other misc. files]] such as .box and .lst |
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| ==== Mathematical Conventions ==== | ==== Mathematical Conventions ==== |
| //Note: These pages are often out of date. For up to date details please run// <code>e2help.py <object type> -v 2</code> | //Note: These pages are often out of date. For up to date details please run// <code>e2help.py <object type> -v 2</code> |
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| * [[EMAN2:Modular/Overview|Overview of how to use modular functions]] | * [[EMAN2:Modular:Overview|Overview of how to use modular functions]] |
| * [[EMAN2:Modular/Processors|Processors]] - Filters, masks and other basic image processing operations | * [[EMAN2:Modular:Processors|Processors]] - Filters, masks and other basic image processing operations |
| * [[EMAN2:Modular/Cmps|Comparators]] (cmp) - Similarity metrics (cmp) for comparing two images/volumes | * [[EMAN2:Modular:Cmps|Comparators]] (cmp) - Similarity metrics (cmp) for comparing two images/volumes |
| * [[EMAN2:Modular/Aligners|Aligners]] - Algorithms for aligning one image/volume to another | * [[EMAN2:Modular:Aligners|Aligners]] - Algorithms for aligning one image/volume to another |
| * [[EMAN2:Modular/Averagers|Averagers]] - Methods for averaging many images/volumes together | * [[EMAN2:Modular:Averagers|Averagers]] - Methods for averaging many images/volumes together |
| * [[EMAN2:Modular/Projectors|Projectors]] - Generate 2-D projections of 3-D volumes (or 1-D projections of 2-D images) | * [[EMAN2:Modular:Projectors|Projectors]] - Generate 2-D projections of 3-D volumes (or 1-D projections of 2-D images) |
| * [[EMAN2:Modular/Reconstructors|Reconstructors]] - Generate 3-D volumetric reconstructions from sets of 2-D images and orientation paramters | * [[EMAN2:Modular:Reconstructors|Reconstructors]] - Generate 3-D volumetric reconstructions from sets of 2-D images and orientation paramters |
| * [[EMAN2:Modular/Analyzers|Analyzers]] - Perform various analyses on sets of images/volumes | * [[EMAN2:Modular:Analyzers|Analyzers]] - Perform various analyses on sets of images/volumes |
| * [[EMAN2:Modular/Symmetries|Symmetries]] - Permissible symmetries to use in EMAN2 | * [[EMAN2:Modular:Symmetries|Symmetries]] - Permissible symmetries to use in EMAN2 |
| * [[EMAN2:Modular/OrientGens|Orientation Generators]] (orientgen) - Methods for generating sets of orientations filling an asymmetric unit | * [[EMAN2:Modular:OrientGens|Orientation Generators]] (orientgen) - Methods for generating sets of orientations filling an asymmetric unit |
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