unravel.core

Created on Fri Mar 11 11:05:25 2022

@author: DELINTE Nicolas

Functions

`angle_difference`(vs, vf[, direction])	Computes the angle difference between n vectors.
`angular_agreement`(phi_maps, volume_shape)
`angular_weighting`(vs, vf[, nf])	Computes the relative contributions of the segments in vf to vs using angular weighting.
`closest_fixel_only`(vs, vf[, nf])	Computes the relative contributions of the segments in vf to vs using the closest-fixel-only approach.
`compute_subsegments`(start, finish[, ...])	Computes the voxels containing a segment (defined by the start and finish) and the segment length that is contained within them.
`deltas_to_D`(dx, dy, dz[, lamb, vec_len])	Function creating a diffusion tensor from three orthogonal components.
`fraction_weighting`(point, ff[, nf])	Computes the relative contribution of each fixel k based on its fraction ff in voxel (point).
`get_fixel_weight`(trk, peaks[, method, ff, ...])	Get the fixel weights from a tract specified in trk_file.
`get_fixel_weight_DIAMOND`(trk_file, ...[, K, ...])	Get the fixel weights from a tract specified in trk_file and the tensors obtained from DIAMOND.
`get_fixel_weight_MF`(trk_file, MF_dir, Patient)	Get the fixel weights from a tract specified in trk_file and the peaks obtained from Microsrcuture Fingerprinting.
`get_microstructure_map`(fixel_weights, ...)	Returns a 3D volume representing the microstructure map
`get_streamline_weights`(trk, peaks[, ...])
`get_weighted_mean`(micro_map, fixel_weights)	Returns the mean value of a microstructure map using either a voxel or total segment length (tsl) weighing method.
`get_weighted_sums`(metric_maps, fixelWeightList)	TODO: unify with get_microstructure_map and total_segment_length Outdated.
`main_fixel_map`(fixel_weights)	Ouputs a map representing the most aligned fixel.
`peak_to_tensor`(peaks[, norm, pixdim])	Takes peaks, such as the ones obtained with Microstructure Fingerprinting, and return the corresponding tensor, in the format used in DIAMOND.
`plot_streamline_metrics`(trk, peaks, metric_maps)	Plots the evolution of a metric along the course of a single streamline.
`plot_streamline_metrics_old`(streamList, ...)	Plots the evolution of a metric along the course of a single streamline.
`relative_angular_weighting`(vs, vf[, nf])	Computes the relative contributions of the segments in vList to vs using relative angular weighting, which attributes less weight to fixel perpendicular to the streamline segment.
`t6ToMFpeak`(t)	(6,17,1,15) with info on 0,2,5 to (17,1,15,3)
`tensor_to_peak`(t)	Takes peaks, such as the ones obtained with DIAMOND, and returns the corresponding tensor, in the format used in Microstructure Fingerprinting.
`total_segment_length`(fixel_weights)
`tract_to_streamlines`(trk)	Return a list with the position of each step of each streamline from a tractogram.
`volumetric_agreement`(fixel_weights)
`voxel_distance`(position1, position2)	Returns the distance between two voxels in multiple dimensions.
`voxels_from_segment`(position1, position2[, ...])	Computes the voxels containing a segment (defined by the position 1 and 2) and the segment length that is contained within them.
`weighted_mean_dev`(metric_maps, fixelWeightList)	Return the weighted means and standard deviation from list of metric maps and corresponding fixel weights.