Module `ukat.data.fetch`

Functions

def b0_ge()

Fetches b0/ge dataset

Returns

numpy.ndarray: image data - Magnitude
numpy.ndarray: image data - Phase
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def b0_philips()

Fetches b0/philips dataset

Returns

numpy.ndarray: image data - Magnitude
numpy.ndarray: image data - Phase
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def b0_siemens(dataset_id)

Fetches b0/siemens_{dataset_id} dataset dataset_id : int Number of the dataset to load: - dataset_id = 1 to load "b0/siemens_1" - dataset_id = 2 to load "b0/siemens_2" Returns

numpy.ndarray: image data - Magnitude
numpy.ndarray: image data - Phase
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def dwi_ge()

Fetches dwi/ge dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.array: array of bvalues
numpy.array: array of bvectors

def dwi_philips()

Fetches dwi/philips dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.array: array of bvalues
numpy.array: array of bvectors

def dwi_siemens()

Fetches dwi/siemens dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.array: array of bvalues
numpy.array: array of bvectors

def get_fnames(name)

Provide full paths to example or test datasets. Parameters

name : str: the filename/s of which dataset to return

Returns

fnames : list: filenames for dataset

def mtr_philips()

Fetches mtr/philips dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data

def phase_contrast_left_philips()

Fetches pc_left/philips dataset Returns

numpy.ndarray: image data
numpy.ndarray: boolean mask for image data
numpy.ndarray: affine matrix for image data
float: velocity encoding of the phase contrast scan data

def phase_contrast_right_philips()

Fetches pc_right/philips dataset Returns

numpy.ndarray: image data
numpy.ndarray: boolean mask for image data
numpy.ndarray: affine matrix for image data
float: velocity encoding of the phase contrast scan data

def t1_molli_philips()

Fetches Philips MOLLI T1 dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: inversion times in seconds

def t1_philips(dataset_id)

Fetches t1/philips_{dataset_id} dataset dataset_id : int Number of the dataset to load: - dataset_id = 1 to load "t1/philips_1" - dataset_id = 2 to load "t1/philips_2" Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of inversion times, in seconds
float: temporal slice spacing of image, in seconds

def t1w_volume_philips()

Fetches segmentation/philips_t1w dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data

def t2_ge(dataset_id=1)

Fetches t2/ge_{dataset_id} dataset dataset_id : int Number of the dataset to load: - dataset_id = 1 to load "t2/ge_1" Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def t2_philips(dataset_id=1)

Fetches t2/philips_{dataset_id} dataset dataset_id : int Number of the dataset to load: - dataset_id = 1 to load "t2/philips_1" Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def t2_siemens(dataset_id=1)

Fetches t2/siemens_{dataset_id} dataset dataset_id : int Number of the dataset to load: - dataset_id = 1 to load "t2/siemens_1" Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def t2star_ge()

Fetches t2star/ge dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def t2star_philips()

Fetches t2star/philips dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def t2star_siemens()

Fetches t2star/siemens dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data
numpy.ndarray: array of echo times, in seconds

def t2w_volume_philips()

Fetches segmentation/philips_t2w dataset Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data

def tsnr_high_philips()

Fetches high tSNR/philips datasets

Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data

def tsnr_low_philips()

Fetches low tSNR/philips datasets Returns

numpy.ndarray: image data
numpy.ndarray: affine matrix for image data