mcot.mde.xps¶

Implements the xps data structure described by Markus Nilsson (https://github.com/markus-nilsson/md-dmri/blob/master/mdm/readme.txt)

This quantifies multiple diffusion encoding data

Classes

AcquisitionParams(*args, **kwargs)

Functions

`angle2bvec`(phi, theta)
`angle2fullrot`(phi, theta, psi)
`bt2b`(bt)	Derives b-value from the b-tensor
`bt2btensor`(bt)	Converts flattend b-value into b-tensor using
`btensor2bt`(btensor)	Flattens the b-tensor
`bvec2angle`(bvec)	Converts the symmetry axis to an angle
`concat`(*parts)	Concatenate multiple MDE XPS objects
`decompose`(btensor)	Decomposes the b-tensor into eigen-values and symmetry axis
`eigenvalues2shape`(b, b_delta, b_eta)
`fullrot2angle`(bvec, bvec2)	Converts the symmetry + secondary axes to an angle
`get_sidecar`(filename)	Gets the sidecar corresponding to a known file
`reconstruct`(b_passxx, b_passyy, b_passzz, ...)	Reconstructs the b-tensor based on the eigen-values/vectos
`register_conversion`(input, output)

angle2bvec¶

mcot.mde.xps.angle2bvec(phi, theta)[source]¶

angle2fullrot¶

mcot.mde.xps.angle2fullrot(phi, theta, psi)[source]¶

bt2b¶

mcot.mde.xps.bt2b(bt)[source]¶: Derives b-value from the b-tensor

bt2btensor¶

mcot.mde.xps.bt2btensor(bt)[source]¶

Converts flattend b-value into b-tensor using

Parameters: bt –
Returns

btensor2bt¶

mcot.mde.xps.btensor2bt(btensor)[source]¶: Flattens the b-tensor

bvec2angle¶

mcot.mde.xps.bvec2angle(bvec)[source]¶: Converts the symmetry axis to an angle

concat¶

mcot.mde.xps.concat(*parts)[source]¶

Concatenate multiple MDE XPS objects

Parameters: parts – individual MDE XPS objects
Returns: new MDE XPS object

decompose¶

mcot.mde.xps.decompose(btensor)[source]¶: Decomposes the b-tensor into eigen-values and symmetry axis

eigenvalues2shape¶

mcot.mde.xps.eigenvalues2shape(b, b_delta, b_eta)[source]¶

fullrot2angle¶

mcot.mde.xps.fullrot2angle(bvec, bvec2)[source]¶: Converts the symmetry + secondary axes to an angle

get_sidecar¶

mcot.mde.xps.get_sidecar(filename) → mcot.mde.xps.AcquisitionParams[source]¶

Gets the sidecar corresponding to a known file

Parameters: filename – path of NIFTI image
Returns: corresponding metadata

reconstruct¶

mcot.mde.xps.reconstruct(b_passxx, b_passyy, b_passzz, bvec, bvec2)[source]¶: Reconstructs the b-tensor based on the eigen-values/vectos

register_conversion¶

mcot.mde.xps.register_conversion(input, output)[source]¶