Index

A

abp_n4() (ANTsImage method), [1] (in module ants) (in module ants.ops.bias_correction) abs() (ANTsImage method), [1] add_noise_to_image() (ANTsImage method), [1] (in module ants.ops) Affine3D (class in ants.contrib.sampling.affine3d) affine_initializer() (in module ants) allclose() (ANTsImage method), [1] (in module ants.utils.consistency) anti_alias() (ANTsImage method), [1] (in module ants.ops) ants module ants.config module ants.contrib module ants.contrib.sampling module ants.contrib.sampling.affine2d module ants.contrib.sampling.affine3d module ants.contrib.sampling.transforms module ants.core module ants.core.ants_image module ants.core.ants_image_io module ants.core.ants_metric module ants.core.ants_metric_io module ants.core.ants_transform module ants.core.ants_transform_io module ants.decorators module ants.deeplearn module ants.deeplearn.cropping_and_padding_utilities module ants.deeplearn.one_hot_segmentation module ants.internal module ants.label module ants.learn module ants.learn.decomposition module ants.lib module

ants.math module ants.math.averaging module ants.math.get_neighborhood module ants.math.metrics module ants.ops module ants.ops.bias_correction module ants.ops.reorient_image module ants.plotting module ants.segmentation module ants.segmentation.kmeans module ants.segmentation.otsu module ants.utils module ants.utils.channels module ants.utils.consistency module ants.utils.matrix_image module ants.utils.nibabel_nifti_to_ants module ants.utils.nifti_utils module ants.utils.scalar_rgb_vector module ants.utils.sitk_to_ants module ANTsImage (class in ants.core.ants_image), [1] ANTsImageToImageMetric (class in ants.core.ants_metric), [1] ANTsTransform (class in ants.core.ants_transform), [1] apply() (ANTsImage method), [1] (ANTsTransform method), [1] apply_ants_transform() (in module ants.core.ants_transform) apply_ants_transform_to_image() (in module ants.core.ants_transform) apply_ants_transform_to_point() (in module ants.core.ants_transform) apply_ants_transform_to_vector() (in module ants.core.ants_transform) apply_to_image() (ANTsTransform method), [1] apply_to_point() (ANTsTransform method), [1] apply_to_vector() (ANTsTransform method), [1] apply_transforms() (in module ants) argmax() (ANTsImage method), [1] argmin() (ANTsImage method), [1] argrange() (ANTsImage method), [1] astype() (ANTsImage method), [1] atropos() (in module ants) (in module ants.segmentation) average_images() (in module ants.math.averaging)

B

BlurIntensity (class in ants.contrib.sampling.transforms)

C

CastIntensity (class in ants.contrib.sampling.transforms) clone() (ANTsImage method), [1] components (ANTsImage property), [1] compose_ants_transforms() (in module ants.core.ants_transform) convergence_monitoring() (in module ants.utils) copy_image_info() (in module ants.core.ants_image) create_ants_metric() (in module ants) (in module ants.core.ants_metric_io) create_ants_transform() (in module ants) (in module ants.core.ants_transform_io)

create_jacobian_determinant_image() (in module ants) create_warped_grid() (in module ants) crop_image() (ANTsImage method), [1] (in module ants) (in module ants.ops) crop_image_center() (in module ants) (in module ants.deeplearn.cropping_and_padding_utilities) crop_indices() (ANTsImage method), [1] (in module ants)

D

data_augmentation() (in module ants) (in module ants.deeplearn) decrop_image() (ANTsImage method), [1] (in module ants) denoise_image() (ANTsImage method), [1] (in module ants) (in module ants.ops)

dicom_read() (in module ants.core.ants_image_io) dimension (ANTsImage property), [1] (ANTsImageToImageMetric property), [1] direction (ANTsImage property), [1] dtype (ANTsImage property), [1]

E

eig_seg() (in module ants) (in module ants.learn.decomposition)

extract_image_patches() (in module ants) (in module ants.deeplearn)

F

fit_bspline_displacement_field() (in module ants) fit_bspline_object_to_scattered_data() (in module ants) fixed_parameters (ANTsTransform property), [1] flatten() (ANTsImage method), [1] FlipImage (class in ants.contrib.sampling.transforms) from_numpy() (in module ants) (in module ants.core.ants_image_io) from_numpy_like() (in module ants.core.ants_image_io)

from_pointer() (in module ants.core.ants_image) from_sitk() (in module ants) (in module ants.utils.sitk_to_ants) fsl2antstransform() (in module ants) (in module ants.core.ants_transform_io) functional_lung_segmentation() (in module ants) (in module ants.segmentation) fuzzy_spatial_cmeans_segmentation() (in module ants) (in module ants.segmentation)

G

get_ants_data() (in module ants) (in module ants.utils) get_ants_transform_fixed_parameters() (in module ants.core.ants_transform) get_ants_transform_parameters() (in module ants.core.ants_transform) get_center_of_mass() (ANTsImage method), [1] (in module ants) (in module ants.ops.reorient_image) get_centroids() (ANTsImage method), [1] (in module ants) (in module ants.math) get_direction() (in module ants.core.ants_image) get_lib_fn() (in module ants.internal) get_mask() (ANTsImage method), [1] (in module ants) (in module ants.ops)

get_neighborhood_at_voxel() (ANTsImage method), [1] (in module ants.math.get_neighborhood) get_neighborhood_in_mask() (ANTsImage method), [1] (in module ants.math.get_neighborhood) get_nifti_qform_spatial_info() (in module ants.utils.nifti_utils) get_nifti_sform_shear() (in module ants.utils.nifti_utils) get_nifti_sform_spatial_info() (in module ants.utils.nifti_utils) get_nifti_spatial_transform_from_metadata() (in module ants.utils.nifti_utils) get_orientation() (ANTsImage method), [1] (in module ants.ops.reorient_image) get_origin() (in module ants.core.ants_image) get_pointer_string() (in module ants.internal) get_possible_orientations() (in module ants.ops.reorient_image) get_spacing() (in module ants.core.ants_image) get_value() (ANTsImageToImageMetric method), [1]

H

has_components (ANTsImage property), [1] hausdorff_distance() (ANTsImage method), [1] (in module ants.math) hessian_objectness() (ANTsImage method), [1] (in module ants.ops) histogram_equalize_image() (ANTsImage method), [1] (in module ants.ops)

histogram_match_image() (ANTsImage method), [1] (in module ants.ops) histogram_match_image2() (ANTsImage method), [1] histogram_warp_image_intensities() (in module ants) (in module ants.deeplearn)

I

image_clone() (in module ants) (in module ants.core.ants_image_io) image_header_info() (in module ants) (in module ants.core.ants_image_io) image_list_to_matrix() (in module ants) (in module ants.utils.matrix_image) image_method() (in module ants.decorators) image_mutual_information() (ANTsImage method), [1] (in module ants) (in module ants.math.metrics) image_physical_space_consistency() (ANTsImage method), [1] (in module ants.utils.consistency) image_read() (in module ants) (in module ants.core.ants_image_io) image_similarity() (ANTsImage method), [1] (in module ants) (in module ants.math) image_to_cluster_images() (ANTsImage method), [1] (in module ants) (in module ants.label) image_type_cast() (in module ants.ops) image_write() (ANTsImage method), [1] (in module ants) (in module ants.core.ants_image_io) images_from_matrix() (in module ants) (in module ants.utils.matrix_image) images_to_matrix() (in module ants) (in module ants.utils.matrix_image) iMath() (ANTsImage method), [1] (in module ants) (in module ants.ops)

iMath_canny() (ANTsImage method), [1] iMath_fill_holes() (ANTsImage method), [1] iMath_GC() (ANTsImage method), [1] iMath_GD() (ANTsImage method), [1] iMath_GE() (ANTsImage method), [1] iMath_get_largest_component() (ANTsImage method), [1] iMath_GO() (ANTsImage method), [1] iMath_grad() (ANTsImage method), [1] iMath_histogram_equalization() (ANTsImage method), [1] iMath_laplacian() (ANTsImage method), [1] iMath_maurer_distance() (ANTsImage method), [1] iMath_MC() (ANTsImage method), [1] iMath_MD() (ANTsImage method), [1] iMath_ME() (ANTsImage method), [1] iMath_MO() (ANTsImage method), [1] iMath_normalize() (ANTsImage method), [1] iMath_pad() (ANTsImage method), [1] iMath_perona_malik() (ANTsImage method), [1] iMath_propagate_labels_through_mask() (ANTsImage method), [1] iMath_sharpen() (ANTsImage method), [1] iMath_truncate_intensity() (ANTsImage method), [1] infer_dtype() (in module ants.internal) initialize() (ANTsImageToImageMetric method), [1] initialize_eigenanatomy() (in module ants) (in module ants.learn.decomposition) invert() (ANTsTransform method), [1] invert_ants_transform() (in module ants.core.ants_transform) is_image() (in module ants.core.ants_image) is_rgb (ANTsImage property), [1] is_vector (ANTsImageToImageMetric property), [1]

J

joint_label_fusion() (in module ants) (in module ants.segmentation)

K

kelly_kapowski() (in module ants) (in module ants.segmentation)

kmeans_segmentation() (in module ants) (in module ants.segmentation.kmeans)

L

label_clusters() (ANTsImage method), [1] (in module ants) (in module ants.label) label_geometry_measures() (ANTsImage method), [1] (in module ants) (in module ants.label) label_image_centroids() (ANTsImage method), [1] (in module ants) (in module ants.label)

label_overlap_measures() (ANTsImage method), [1] (in module ants) (in module ants.label) label_stats() (ANTsImage method), [1] (in module ants.label) labels_to_matrix() (ANTsImage method), [1] (in module ants.label) list_to_ndimage() (ANTsImage method), [1] LocallyBlurIntensity (class in ants.contrib.sampling.transforms)

M

make_image() (in module ants) (in module ants.core.ants_image_io) make_points_image() (in module ants.label) mask_image() (ANTsImage method), [1] (in module ants) (in module ants.ops) matrix_from_images() (in module ants) (in module ants.utils.matrix_image) matrix_to_images() (in module ants) (in module ants.utils.matrix_image) matrix_to_timeseries() (ANTsImage method), [1] (in module ants.utils.matrix_image) max() (ANTsImage method), [1] mean() (ANTsImage method), [1] median() (ANTsImage method), [1] merge_channels() (in module ants) (in module ants.utils.channels) metrictype (ANTsImageToImageMetric property), [1] min() (ANTsImage method), [1] mni2tal() (in module ants) (in module ants.utils) module ants ants.config ants.contrib ants.contrib.sampling ants.contrib.sampling.affine2d ants.contrib.sampling.affine3d ants.contrib.sampling.transforms ants.core ants.core.ants_image ants.core.ants_image_io ants.core.ants_metric ants.core.ants_metric_io ants.core.ants_transform ants.core.ants_transform_io ants.decorators ants.deeplearn ants.deeplearn.cropping_and_padding_utilities ants.deeplearn.one_hot_segmentation ants.internal ants.label ants.learn ants.learn.decomposition ants.lib ants.math ants.math.averaging ants.math.get_neighborhood ants.math.metrics ants.ops ants.ops.bias_correction ants.ops.reorient_image ants.plotting ants.segmentation ants.segmentation.kmeans ants.segmentation.otsu ants.utils ants.utils.channels ants.utils.consistency ants.utils.matrix_image ants.utils.nibabel_nifti_to_ants ants.utils.nifti_utils ants.utils.scalar_rgb_vector ants.utils.sitk_to_ants

morphology() (ANTsImage method), [1] (in module ants) (in module ants.ops) movie() (ANTsImage method), [1] (in module ants.plotting) multi_label_morphology() (ANTsImage method), [1] (in module ants.label) multiply_images() (ANTsImage method), [1] MultiResolutionImage (class in ants.contrib.sampling.transforms)

N

n3_bias_field_correction() (ANTsImage method), [1] (in module ants) (in module ants.ops.bias_correction) n3_bias_field_correction2() (ANTsImage method), [1] (in module ants.ops.bias_correction) n4_bias_field_correction() (ANTsImage method), [1] (in module ants) (in module ants.ops.bias_correction) ndimage_to_list() (ANTsImage method), [1] (in module ants.utils)

new_ants_metric() (in module ants) (in module ants.core.ants_metric_io) new_ants_transform() (in module ants) (in module ants.core.ants_transform_io) new_image_like() (ANTsImage method), [1] (in module ants.core.ants_image_io) nonzero() (ANTsImage method), [1] NormalizeIntensity (class in ants.contrib.sampling.transforms) numpy() (ANTsImage method), [1]

O

orientation (ANTsImage property), [1]

origin (ANTsImage property), [1] otsu_segmentation() (in module ants.segmentation.otsu)

P

pad_image() (ANTsImage method), [1] (in module ants.ops) pad_image_by_factor() (in module ants) (in module ants.deeplearn.cropping_and_padding_utilities) pad_or_crop_image_to_size() (in module ants) (in module ants.deeplearn.cropping_and_padding_utilities) parameters (ANTsTransform property), [1] physical_shape (ANTsImage property), [1] pixeltype (ANTsImage property), [1] plot() (ANTsImage method), [1] (in module ants) (in module ants.plotting)

plot_directory() (in module ants.plotting) plot_grid() (in module ants.plotting) plot_hist() (ANTsImage method), [1] (in module ants.plotting) plot_ortho() (ANTsImage method), [1] (in module ants.plotting) plot_ortho_stack() (in module ants.plotting) pointer (ANTsImageToImageMetric property), [1] polar_decomposition() (in module ants.utils) precision (ANTsImageToImageMetric property), [1] prior_based_segmentation() (in module ants) (in module ants.segmentation) process_arguments() (in module ants.internal)

Q

quantile() (ANTsImage method), [1] (in module ants.math)

R

randomly_transform_image_data() (in module ants) (in module ants.deeplearn) RandomRotate2D (class in ants.contrib.sampling.affine2d) RandomRotate3D (class in ants.contrib.sampling.affine3d) RandomShear2D (class in ants.contrib.sampling.affine2d) RandomShear3D (class in ants.contrib.sampling.affine3d) RandomTranslate2D (class in ants.contrib.sampling.affine2d) RandomTranslate3D (class in ants.contrib.sampling.affine3d) RandomZoom2D (class in ants.contrib.sampling.affine2d) RandomZoom3D (class in ants.contrib.sampling.affine3d) range() (ANTsImage method), [1] read_image_metadata() (in module ants.core.ants_image_io) read_transform() (in module ants) (in module ants.core.ants_transform_io) reconstruct_image_from_patches() (in module ants) (in module ants.deeplearn) reflect_image() (ANTsImage method), [1] (in module ants) (in module ants.ops)

registration() (in module ants), [1] regression_match_image() (in module ants) (in module ants.deeplearn) reorient_image() (in module ants) reorient_image2() (ANTsImage method), [1] (in module ants.ops.reorient_image) resample_image() (ANTsImage method), [1] (in module ants) (in module ants.ops) resample_image_to_target() (ANTsImage method), [1] (in module ants) RescaleIntensity (class in ants.contrib.sampling.transforms) rgb_to_vector() (ANTsImage method), [1] (in module ants.utils.scalar_rgb_vector) Rotate2D (class in ants.contrib.sampling.affine2d) Rotate3D (class in ants.contrib.sampling.affine3d)

S

scalar_to_rgb() (in module ants.utils.scalar_rgb_vector) ScaleImage (class in ants.contrib.sampling.transforms) set_ants_deterministic() (in module ants.config) set_ants_transform_fixed_parameters() (in module ants.core.ants_transform) set_ants_transform_parameters() (in module ants.core.ants_transform) set_direction() (ANTsImage method), [1] (in module ants.core.ants_image) set_fixed_image() (ANTsImageToImageMetric method), [1] set_fixed_mask() (ANTsImageToImageMetric method), [1] set_fixed_parameters() (ANTsTransform method), [1] set_moving_image() (ANTsImageToImageMetric method), [1] set_moving_mask() (ANTsImageToImageMetric method), [1] set_nifti_spatial_transform_from_metadata() (in module ants.utils.nifti_utils) set_origin() (ANTsImage method), [1] (in module ants.core.ants_image) set_parameters() (ANTsTransform method), [1] set_sampling() (ANTsImageToImageMetric method), [1] set_spacing() (ANTsImage method), [1] (in module ants.core.ants_image) shape (ANTsImage property), [1] Shear2D (class in ants.contrib.sampling.affine2d) Shear3D (class in ants.contrib.sampling.affine3d)

ShiftScaleIntensity (class in ants.contrib.sampling.transforms) short_ptype() (in module ants.internal) SigmoidIntensity (class in ants.contrib.sampling.transforms) simulate_bias_field() (in module ants) (in module ants.deeplearn) simulate_displacement_field() (in module ants) slice_image() (ANTsImage method), [1] (in module ants.ops) smooth_image() (ANTsImage method), [1] (in module ants) (in module ants.ops) spacing (ANTsImage property), [1] sparse_decom2() (in module ants) (in module ants.learn.decomposition) split_channels() (ANTsImage method), [1] (in module ants) (in module ants.utils.channels) std() (ANTsImage method), [1] sum() (ANTsImage method), [1] supported_metrics() (in module ants) (in module ants.core.ants_metric_io) symmetrize_image() (ANTsImage method), [1] (in module ants.ops)

T

threshold_image() (ANTsImage method), [1] (in module ants) (in module ants.ops) timeseries_to_matrix() (ANTsImage method), [1] (in module ants.utils.matrix_image) to_file() (ANTsImage method), [1] to_filename() (ANTsImage method), [1] to_sitk() (in module ants) (in module ants.utils.sitk_to_ants) transform() (Affine3D method) (BlurIntensity method) (CastIntensity method) (FlipImage method) (LocallyBlurIntensity method) (MultiResolutionImage method) (NormalizeIntensity method) (RandomRotate2D method) (RandomRotate3D method) (RandomShear2D method) (RandomShear3D method) (RandomTranslate2D method) (RandomTranslate3D method) (RandomZoom2D method) (RandomZoom3D method) (RescaleIntensity method) (Rotate2D method) (Rotate3D method) (ScaleImage method) (Shear2D method) (Shear3D method) (ShiftScaleIntensity method) (SigmoidIntensity method) (Translate2D method) (Translate3D method) (TranslateImage method) (Zoom2D method) (Zoom3D method)

transform_from_displacement_field() (in module ants) (in module ants.core.ants_transform_io) transform_index_to_physical_point() (in module ants.core.ants_transform) transform_physical_point_to_index() (in module ants.core.ants_transform) transform_to_displacement_field() (in module ants.core.ants_transform_io) Translate2D (class in ants.contrib.sampling.affine2d) Translate3D (class in ants.contrib.sampling.affine3d) TranslateImage (class in ants.contrib.sampling.transforms)

U

unique() (ANTsImage method), [1]

V

vector_to_rgb() (ANTsImage method), [1] (in module ants.utils.scalar_rgb_vector)

view() (ANTsImage method), [1]

W

weingarten_image_curvature() (ANTsImage method), [1] (in module ants) (in module ants.ops)

write_transform() (in module ants) (in module ants.core.ants_transform_io)

Z

Zoom2D (class in ants.contrib.sampling.affine2d)

Zoom3D (class in ants.contrib.sampling.affine3d)