Adds utilities for preparing the data for eddy and analysis
- designer.preprocessing.preparation.fix_bval(bvalfile)¶
Converts all whitespace into newlines in the file
- Parameters
bvalfile (str) – The .bval to ensure is the correct format for mrtrix
- Return type
None, overwrites bval
- designer.preprocessing.preparation.make_se_epi(filetable)¶
Makes a single spin-echo epi from the topup and the dwi
- Parameters
filetable (dict of str) – The filetable that pydesigner.py uses to track files
- Return type
None, writes file
- designer.preprocessing.preparation.make_simple_mif(filetable)¶
Makes a single .mif from the HEAD dwi file
- Parameters
filetable (dict of str) – The filetable that pydesigner.py uses to track files
- Return type
None, writes file