Package: rpyANTs 0.0.4.2
rpyANTs: An Alternative Advanced Normalization Tools ('ANTs')
Provides portable access from 'R' to biomedical image processing toolbox 'ANTs' by Avants et al. (2009) <doi:10.54294/uvnhin> via seamless integration with the 'Python' implementation 'ANTsPy'. Allows biomedical images to be processed in 'Python' and analyzed in 'R', and vice versa via shared memory. See 'citation("rpyANTs")' for more reference information.
Authors:
rpyANTs_0.0.4.2.tar.gz
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rpyANTs.pdf |rpyANTs.html✨
rpyANTs/json (API)
NEWS
| # Install 'rpyANTs' in R: |
| install.packages('rpyANTs', repos = c('https://dipterix.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/dipterix/rpyants/issues
Pkgdown:https://dipterix.org
antsbrainieegmrineuroimagingnormalizationpythonregistration
Last updated 2 days agofrom:59d40f2ab9. Checks:OK: 7. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 19 2024 |
| R-4.5-win | OK | Dec 19 2024 |
| R-4.5-linux | OK | Dec 19 2024 |
| R-4.4-win | OK | Dec 19 2024 |
| R-4.4-mac | OK | Dec 19 2024 |
| R-4.3-win | OK | Dec 19 2024 |
| R-4.3-mac | OK | Dec 19 2024 |
Exports:antsants_apply_transformsants_apply_transforms_to_pointsants_availableants_motion_correctionants_plotants_plot_gridants_registrationants_resample_imageantspynet_brain_extractionantspynet_deep_atroposantspynet_desikan_killiany_tourville_labelingantspynet_preprocess_brain_imageas_ANTsImageas_ANTsTransformcorrect_intensityensure_templatehalpern_apply_transform_template_mrihalpern_register_ct_mrihalpern_register_template_mriimportinstall_antsis_affine3Dload_antsload_antspynetnp_arraypypy_boolpy_builtinpy_callpy_del_attrpy_del_itempy_dictpy_evalpy_get_attrpy_get_itempy_helppy_lenpy_listpy_nonepy_run_stringpy_set_attrpy_set_itempy_slicepy_strpy_to_rpy_to_r_wrapperr_to_pyrepl_pythonrun_scriptt1_preprocesstuple
Dependencies:base64encclicrayondigestevaluatefastmapglueherehtmltoolsIRdisplayIRkerneljsonlitelatticelifecycleMatrixpbdZMQpillarpngrappdirsRcppRcppTOMLreprreticulaterlangRNiftirprojrootrpymatrstudioapiutf8uuidvctrswithr
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Get 'ANTsPy' module | ants load_ants |
| Apply a transform list to map an image from one domain to another | ants_apply_transforms |
| Apply a transform list to map points from one domain to another | ants_apply_transforms_to_points |
| Check if 'ANTs' is available | ants_available |
| Motion correction | ants_motion_correction |
| Plot single ''ANTsImage'' | ants_plot |
| Plot multiple ''ANTsImage'' | ants_plot_grid |
| Register two images using 'ANTs' | ants_registration |
| Resample image | ants_resample_image |
| Get ''ANTsPyNet'' module | antspynet load_antspynet |
| Extract brain and strip skull | antspynet_brain_extraction |
| Process brain image prior to segmentation | antspynet_preprocess_brain_image |
| Imaging segmentation using 'antspynet' | antspynet_deep_atropos antspynet_desikan_killiany_tourville_labeling antspynet_segmentation |
| Load data as ''ANTsImage'' class | as_ANTsImage |
| Convert to ''ANTsTransform'' | as_ANTsTransform as_ANTsTransform.ants.core.ants_image.ANTsImage as_ANTsTransform.ants.core.ants_transform.ANTsTransform as_ANTsTransform.character as_ANTsTransform.default as_ANTsTransform.numpy.ndarray |
| Truncate and correct 'MRI' intensity | correct_intensity |
| Ensure the template directory is downloaded | ensure_template |
| 'ANTs' functions for 'Halpern' lab | halpern_apply_transform_template_mri halpern_preprocess halpern_register_ct_mri halpern_register_template_mri |
| Install 'ANTs' via 'ANTsPy' | install_ants |
| Check if an object is a 3D 'affine' transform matrix | is_affine3D is_affine3D.ants.core.ants_transform.ANTsTransform is_affine3D.default |
| Get 'Python' main process environment | py |
| Get 'Python' built-in object | py_builtin |
| List in 'Python' | py_list |
| Slice index in 'Python' arrays | py_slice |
| Process 'T1' image | t1_preprocess |
