Index

A

abp_n4() (ants.core.ants_image.ANTsImage method), [1] (in module ants) abs() (ants.core.ants_image.ANTsImage method), [1] add_noise_to_image() (ants.core.ants_image.ANTsImage method), [1] affine_initializer() (in module ants) (in module ants.registration.affine_initializer) allclose() (ants.core.ants_image.ANTsImage method), [1] anti_alias() (ants.core.ants_image.ANTsImage method), [1] ants module, [1], [2], [3], [4], [5], [6], [7] 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.learn module ants.learn.decomposition module ants.lib module ants.registration module ants.registration.affine_initializer module ants.registration.apply_transforms module ants.registration.build_template module ants.registration.create_jacobian_determinant_image module ants.registration.create_warped_grid module ants.segmentation module ants.segmentation.atropos module

ants.segmentation.joint_label_fusion module ants.segmentation.kelly_kapowski module ants.segmentation.kmeans module ants.segmentation.otsu module ants.segmentation.prior_based_segmentation module ants.utils module ants.utils.channels module ants.utils.get_ants_data module ants.utils.mni2tal module ants.utils.ndimage_to_list 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() (ants.core.ants_image.ANTsImage method), [1] (ants.core.ants_transform.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() (ants.core.ants_transform.ANTsTransform method), [1] apply_to_point() (ants.core.ants_transform.ANTsTransform method), [1] apply_to_vector() (ants.core.ants_transform.ANTsTransform method), [1] apply_transforms() (in module ants) (in module ants.registration.apply_transforms) apply_transforms_to_points() (in module ants.registration.apply_transforms) argmax() (ants.core.ants_image.ANTsImage method), [1] argmin() (ants.core.ants_image.ANTsImage method), [1] argrange() (ants.core.ants_image.ANTsImage method), [1] astype() (ants.core.ants_image.ANTsImage method), [1] atropos() (in module ants) (in module ants.segmentation.atropos)

B

build_template() (in module ants.registration.build_template)

C

clone() (ants.core.ants_image.ANTsImage method), [1] components (ants.core.ants_image.ANTsImage property) compose_ants_transforms() (in module ants.core.ants_transform) 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) (in module ants.registration.create_jacobian_determinant_image) create_warped_grid() (in module ants) (in module ants.registration.create_warped_grid) crop_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants) crop_image_center() (in module ants) crop_indices() (ants.core.ants_image.ANTsImage method), [1] (in module ants)

D

data_augmentation() (in module ants) decrop_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants) deformation_gradient() (in module ants.registration.create_jacobian_determinant_image) denoise_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants)

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

E

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

extract_image_patches() (in module ants)

F

fit_bspline_displacement_field() (in module ants) fit_bspline_object_to_scattered_data() (in module ants) fixed_parameters (ants.core.ants_transform.ANTsTransform property), [1] flatten() (ants.core.ants_image.ANTsImage method), [1] 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) fuzzy_spatial_cmeans_segmentation() (in module ants)

G

get_ants_data() (in module ants) (in module ants.utils.get_ants_data) 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() (ants.core.ants_image.ANTsImage method), [1] (in module ants) get_centroids() (ants.core.ants_image.ANTsImage method), [1] (in module ants) get_data() (in module ants.utils.get_ants_data)

get_direction() (in module ants.core.ants_image) get_mask() (ants.core.ants_image.ANTsImage method), [1] (in module ants) get_neighborhood_at_voxel() (ants.core.ants_image.ANTsImage method), [1] get_neighborhood_in_mask() (ants.core.ants_image.ANTsImage method), [1] get_orientation() (ants.core.ants_image.ANTsImage method) get_origin() (in module ants.core.ants_image) get_spacing() (in module ants.core.ants_image) get_value() (ants.core.ants_metric.ANTsImageToImageMetric method)

H

has_components (ants.core.ants_image.ANTsImage property) hausdorff_distance() (ants.core.ants_image.ANTsImage method), [1] hessian_objectness() (ants.core.ants_image.ANTsImage method), [1]

histogram_equalize_image() (ants.core.ants_image.ANTsImage method), [1] histogram_match_image() (ants.core.ants_image.ANTsImage method), [1] histogram_match_image2() (ants.core.ants_image.ANTsImage method), [1] histogram_warp_image_intensities() (in module ants)

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) image_mutual_information() (ants.core.ants_image.ANTsImage method), [1] (in module ants) image_physical_space_consistency() (ants.core.ants_image.ANTsImage method), [1] image_read() (in module ants) (in module ants.core.ants_image_io) image_similarity() (ants.core.ants_image.ANTsImage method), [1] (in module ants) image_to_cluster_images() (ants.core.ants_image.ANTsImage method), [1] (in module ants) image_write() (ants.core.ants_image.ANTsImage method), [1] (in module ants) (in module ants.core.ants_image_io) images_from_matrix() (in module ants) images_to_matrix() (in module ants) iMath() (ants.core.ants_image.ANTsImage method), [1] (in module ants) iMath_canny() (ants.core.ants_image.ANTsImage method) iMath_fill_holes() (ants.core.ants_image.ANTsImage method) iMath_GC() (ants.core.ants_image.ANTsImage method) iMath_GD() (ants.core.ants_image.ANTsImage method)

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

J

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

K

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

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

L

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

label_overlap_measures() (ants.core.ants_image.ANTsImage method), [1] (in module ants) label_stats() (ants.core.ants_image.ANTsImage method), [1] labels_to_matrix() (ants.core.ants_image.ANTsImage method), [1] list_to_ndimage() (ants.core.ants_image.ANTsImage method), [1] (in module ants.utils.ndimage_to_list) local_joint_label_fusion() (in module ants.segmentation.joint_label_fusion)

M

make_image() (in module ants) (in module ants.core.ants_image_io) mask_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants) matrix_from_images() (in module ants) matrix_to_images() (in module ants) matrix_to_timeseries() (ants.core.ants_image.ANTsImage method), [1] max() (ants.core.ants_image.ANTsImage method), [1] mean() (ants.core.ants_image.ANTsImage method), [1] median() (ants.core.ants_image.ANTsImage method), [1] merge_channels() (in module ants) (in module ants.utils.channels) metrictype (ants.core.ants_metric.ANTsImageToImageMetric property) min() (ants.core.ants_image.ANTsImage method), [1] mni2tal() (in module ants) (in module ants.utils.mni2tal) module ants, [1], [2], [3], [4], [5], [6], [7] 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.learn ants.learn.decomposition ants.lib ants.registration ants.registration.affine_initializer ants.registration.apply_transforms ants.registration.build_template ants.registration.create_jacobian_determinant_image ants.registration.create_warped_grid ants.segmentation ants.segmentation.atropos ants.segmentation.joint_label_fusion ants.segmentation.kelly_kapowski ants.segmentation.kmeans ants.segmentation.otsu ants.segmentation.prior_based_segmentation ants.utils ants.utils.channels ants.utils.get_ants_data ants.utils.mni2tal ants.utils.ndimage_to_list ants.utils.scalar_rgb_vector ants.utils.sitk_to_ants

morphology() (ants.core.ants_image.ANTsImage method), [1] (in module ants) movie() (ants.core.ants_image.ANTsImage method), [1] multi_label_morphology() (ants.core.ants_image.ANTsImage method), [1] multiply_images() (ants.core.ants_image.ANTsImage method)

N

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

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() (ants.core.ants_image.ANTsImage method), [1] (in module ants.core.ants_image_io) nonzero() (ants.core.ants_image.ANTsImage method), [1] numpy() (ants.core.ants_image.ANTsImage method), [1]

O

orientation (ants.core.ants_image.ANTsImage property)

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

P

pad_image() (ants.core.ants_image.ANTsImage method), [1] pad_image_by_factor() (in module ants) pad_or_crop_image_to_size() (in module ants) parameters (ants.core.ants_transform.ANTsTransform property), [1] physical_shape (ants.core.ants_image.ANTsImage property) pixeltype (ants.core.ants_image.ANTsImage property) plot() (ants.core.ants_image.ANTsImage method), [1] (in module ants)

plot_hist() (ants.core.ants_image.ANTsImage method), [1] plot_ortho() (ants.core.ants_image.ANTsImage method), [1] pointer (ants.core.ants_metric.ANTsImageToImageMetric property) precision (ants.core.ants_metric.ANTsImageToImageMetric property) prior_based_segmentation() (in module ants) (in module ants.segmentation.prior_based_segmentation)

Q

quantile() (ants.core.ants_image.ANTsImage method), [1]

R

randomly_transform_image_data() (in module ants) range() (ants.core.ants_image.ANTsImage method), [1] read_transform() (in module ants) (in module ants.core.ants_transform_io) reconstruct_image_from_patches() (in module ants) reflect_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants) registration() (in module ants)

regression_match_image() (in module ants) reorient_image() (in module ants) reorient_image2() (ants.core.ants_image.ANTsImage method), [1] resample_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants) resample_image_to_target() (ants.core.ants_image.ANTsImage method), [1] (in module ants) rgb_to_vector() (ants.core.ants_image.ANTsImage method), [1] (in module ants.utils.scalar_rgb_vector)

S

scalar_to_rgb() (in module ants.utils.scalar_rgb_vector) set_ants_transform_fixed_parameters() (in module ants.core.ants_transform) set_ants_transform_parameters() (in module ants.core.ants_transform) set_direction() (ants.core.ants_image.ANTsImage method), [1] (in module ants.core.ants_image) set_fixed_image() (ants.core.ants_metric.ANTsImageToImageMetric method), [1] set_fixed_mask() (ants.core.ants_metric.ANTsImageToImageMetric method), [1] set_fixed_parameters() (ants.core.ants_transform.ANTsTransform method), [1] set_moving_image() (ants.core.ants_metric.ANTsImageToImageMetric method), [1] set_moving_mask() (ants.core.ants_metric.ANTsImageToImageMetric method), [1] set_origin() (ants.core.ants_image.ANTsImage method), [1] (in module ants.core.ants_image) set_parameters() (ants.core.ants_transform.ANTsTransform method), [1] set_sampling() (ants.core.ants_metric.ANTsImageToImageMetric method) set_spacing() (ants.core.ants_image.ANTsImage method), [1] (in module ants.core.ants_image)

shape (ants.core.ants_image.ANTsImage property) simulate_bias_field() (in module ants) simulate_displacement_field() (in module ants) slice_image() (ants.core.ants_image.ANTsImage method), [1] smooth_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants) spacing (ants.core.ants_image.ANTsImage property), [1] sparse_decom2() (in module ants) (in module ants.learn.decomposition) split_channels() (ants.core.ants_image.ANTsImage method), [1] (in module ants) (in module ants.utils.channels) std() (ants.core.ants_image.ANTsImage method), [1] sum() (ants.core.ants_image.ANTsImage method), [1] supported_metrics() (in module ants) (in module ants.core.ants_metric_io) symmetrize_image() (ants.core.ants_image.ANTsImage method), [1]

T

threshold_image() (ants.core.ants_image.ANTsImage method), [1] (in module ants) timeseries_to_matrix() (ants.core.ants_image.ANTsImage method), [1] to_file() (ants.core.ants_image.ANTsImage method), [1] to_filename() (ants.core.ants_image.ANTsImage method), [1] to_sitk() (in module ants) (in module ants.utils.sitk_to_ants)

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)

U

unique() (ants.core.ants_image.ANTsImage method), [1]

V

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

view() (ants.core.ants_image.ANTsImage method), [1]

W

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

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