mvpa2.atlases.base¶
Base classes for Anatomy atlases support
TODOs:¶
- major optimization. Now code is sloppy and slow – plenty of checks etc
Module Organization¶
mvpa2.atlases.base module contains support for various atlases
| group Base: | BaseAtlas XMLBasedAtlas Label Level LabelsLevel |
|---|---|
| group Talairach: | |
| PyMVPAAtlas LabelsAtlas ReferencesAtlas | |
| group Exceptions: | |
| XMLAtlasException | |
Functions
check_range(coord, range) |
Check if coordinates are within range (0,0,0) - (range) |
enhanced_doc_string(item, \*args, \*\*kwargs) |
Generate enhanced doc strings for various items. |
norm(x[, ord, axis, keepdims]) |
Matrix or vector norm. |
reuse_absolute_path(file1, file2[, force]) |
Use path to file1 as the path to file2 is no absolute |
Classes
BaseAtlas |
Base class for the atlases. |
Label(text[, abbr, coord, count, index]) |
Represents a label. |
LabelsAtlas(\*args, \*\*kwargs) |
Atlas which provides labels for the given coordinate |
LabelsLevel(description[, index, labels]) |
Level of labels. |
Level(description) |
Represents a level. |
Linear([transf]) |
Simple linear transformation defined by a matrix |
PyMVPAAtlas(\*args, \*\*kwargs) |
Base class for PyMVPA atlases, such as LabelsAtlas and ReferenceAtlas |
ReferencesAtlas([distance, reference_level]) |
Atlas which provides references to the other atlases. |
ReferencesLevel(description[, indexes]) |
Level which carries reference points |
SpaceTransformation([voxelSize, origin, ...]) |
To perform transformation from Voxel into Real Space. |
XMLBasedAtlas([filename, resolution, ...]) |
Base class for atlases using XML as the definition backend |
Exceptions
BaseAtlas |
Base class for the atlases. |
Label(text[, abbr, coord, count, index]) |
Represents a label. |
LabelsAtlas(\*args, \*\*kwargs) |
Atlas which provides labels for the given coordinate |
LabelsLevel(description[, index, labels]) |
Level of labels. |
Level(description) |
Represents a level. |
Linear([transf]) |
Simple linear transformation defined by a matrix |
PyMVPAAtlas(\*args, \*\*kwargs) |
Base class for PyMVPA atlases, such as LabelsAtlas and ReferenceAtlas |
ReferencesAtlas([distance, reference_level]) |
Atlas which provides references to the other atlases. |
ReferencesLevel(description[, indexes]) |
Level which carries reference points |
SpaceTransformation([voxelSize, origin, ...]) |
To perform transformation from Voxel into Real Space. |
XMLBasedAtlas([filename, resolution, ...]) |
Base class for atlases using XML as the definition backend |
