Scripts
- scil_NODDI_maps
- scil_NODDI_priors
- scil_aodf_metrics
- scil_bids_validate
- scil_bingham_metrics
- scil_btensor_metrics
- scil_bundle_alter_to_target_dice
- scil_bundle_clean_qbx_clusters
- scil_bundle_compute_centroid
- scil_bundle_compute_endpoints_map
- scil_bundle_diameter
- scil_bundle_explore_bundleseg
- scil_bundle_filter_by_occurrence
- scil_bundle_fixel_analysis
- scil_bundle_generate_priors
- scil_bundle_label_map
- scil_bundle_mean_fixel_afd
- scil_bundle_mean_fixel_afd_from_hdf5
- scil_bundle_mean_fixel_bingham_metric
- scil_bundle_mean_fixel_mrds_metric
- scil_bundle_mean_std
- scil_bundle_pairwise_comparison
- scil_bundle_reject_outliers
- scil_bundle_score_many_bundles_one_tractogram
- scil_bundle_score_same_bundle_many_segmentations
- scil_bundle_shape_measures
- scil_bundle_uniformize_endpoints
- scil_bundle_volume_per_label
- scil_connectivity_compare_populations
- scil_connectivity_compute_matrices
- scil_connectivity_compute_pca
- scil_connectivity_compute_simple_matrix
- scil_connectivity_filter
- scil_connectivity_functional_graph_measures
- scil_connectivity_hdf5_average_density_map
- scil_connectivity_math
- scil_connectivity_normalize
- scil_connectivity_pairwise_agreement
- scil_connectivity_print_filenames
- scil_connectivity_reorder_rois
- scil_connectivity_structural_graph_measures
- scil_denoising_nlmeans
- scil_dki_metrics
- scil_dti_convert_tensors
- scil_dti_metrics
- scil_dwi_apply_bias_field
- scil_dwi_compute_snr
- scil_dwi_concatenate
- scil_dwi_convert_FDF
- scil_dwi_detect_volume_outliers
- scil_dwi_extract_b0
- scil_dwi_extract_shell
- scil_dwi_powder_average
- scil_dwi_prepare_eddy_command
- scil_dwi_prepare_topup_command
- scil_dwi_reorder_philips
- scil_dwi_split_by_indices
- scil_dwi_to_sh
- scil_fibertube_compute_density
- scil_fibertube_score_tractogram
- scil_fibertube_tracking
- scil_fodf_bundleparc
- scil_fodf_max_in_ventricles
- scil_fodf_memsmt
- scil_fodf_metrics
- scil_fodf_msmt
- scil_fodf_ssst
- scil_fodf_to_bingham
- scil_freewater_maps
- scil_frf_mean
- scil_frf_memsmt
- scil_frf_msmt
- scil_frf_set_diffusivities
- scil_frf_ssst
- scil_get_version
- scil_gradients_apply_transform
- scil_gradients_convert
- scil_gradients_generate_sampling
- scil_gradients_modify_axes
- scil_gradients_normalize_bvecs
- scil_gradients_round_bvals
- scil_gradients_validate_correct
- scil_gradients_validate_correct_eddy
- scil_gradients_validate_sampling
- scil_header_print_info
- scil_header_validate_compatibility
- scil_json_convert_entries_to_xlsx
- scil_json_harmonize_entries
- scil_json_merge_entries
- scil_labels_combine
- scil_labels_dilate
- scil_labels_from_mask
- scil_labels_remove
- scil_labels_split_volume_by_ids
- scil_labels_split_volume_from_lut
- scil_lesions_generate_nawm
- scil_lesions_harmonize_labels
- scil_lesions_info
- scil_mrds_metrics
- scil_mrds_select_number_of_tensors
- scil_mti_adjust_B1_header
- scil_mti_maps_MT
- scil_mti_maps_ihMT
- scil_plot_stats_per_point
- scil_qball_metrics
- scil_rgb_convert
- scil_search_keywords
- scil_sh_convert
- scil_sh_fusion
- scil_sh_to_aodf
- scil_sh_to_rish
- scil_sh_to_sf
- scil_stats_group_comparison
- scil_surface_apply_transform
- scil_surface_convert
- scil_surface_create
- scil_surface_flip
- scil_surface_smooth
- scil_tracking_local
- scil_tracking_local_dev
- scil_tracking_pft
- scil_tracking_pft_maps
- scil_tracking_pft_maps_edit
- scil_tractogram_apply_transform
- scil_tractogram_apply_transform_to_hdf5
- scil_tractogram_assign_custom_color
- scil_tractogram_assign_uniform_color
- scil_tractogram_commit
- scil_tractogram_compress
- scil_tractogram_compute_TODI
- scil_tractogram_compute_density_map
- scil_tractogram_convert
- scil_tractogram_convert_hdf5_to_trk
- scil_tractogram_convert_trk_to_hdf5
- scil_tractogram_count_streamlines
- scil_tractogram_cut_streamlines
- scil_tractogram_detect_loops
- scil_tractogram_dpp_math
- scil_tractogram_dps_math
- scil_tractogram_extract_ushape
- scil_tractogram_filter_by_anatomy
- scil_tractogram_filter_by_length
- scil_tractogram_filter_by_orientation
- scil_tractogram_filter_by_roi
- scil_tractogram_filter_collisions
- scil_tractogram_flip
- scil_tractogram_math
- scil_tractogram_pairwise_comparison
- scil_tractogram_print_info
- scil_tractogram_project_map_to_streamlines
- scil_tractogram_project_streamlines_to_map
- scil_tractogram_qbx
- scil_tractogram_register
- scil_tractogram_remove_invalid
- scil_tractogram_resample
- scil_tractogram_resample_nb_points
- scil_tractogram_seed_density_map
- scil_tractogram_segment_connections_from_labels
- scil_tractogram_segment_with_ROI_and_score
- scil_tractogram_segment_with_bundleseg
- scil_tractogram_segment_with_recobundles
- scil_tractogram_shuffle
- scil_tractogram_smooth
- scil_tractogram_split
- scil_viz_bingham_fit
- scil_viz_bundle
- scil_viz_bundle_screenshot_mni
- scil_viz_bundle_screenshot_mosaic
- scil_viz_connectivity
- scil_viz_dti_screenshot
- scil_viz_fodf
- scil_viz_gradients_screenshot
- scil_viz_tractogram_collisions
- scil_viz_tractogram_seeds
- scil_viz_tractogram_seeds_3d
- scil_viz_volume_histogram
- scil_viz_volume_scatterplot
- scil_viz_volume_screenshot
- scil_viz_volume_screenshot_mosaic
- scil_volume_apply_transform
- scil_volume_b0_synthesis
- scil_volume_count_non_zero_voxels
- scil_volume_crop
- scil_volume_distance_map
- scil_volume_flip
- scil_volume_math
- scil_volume_pairwise_comparison
- scil_volume_remove_outliers_ransac
- scil_volume_resample
- scil_volume_reshape
- scil_volume_reslice_to_reference
- scil_volume_stats_in_ROI
- scil_volume_stats_in_labels
- scil_volume_validate_correct_strides