nipype.interfaces.cmtk.nbs module¶
NetworkBasedStatistic¶
Bases: LibraryBaseInterface
Calculates and outputs the average network given a set of input NetworkX gpickle files
See also
For
https
//github.com/LTS5/connectomeviewer/blob/master/cviewer/libs/pyconto/groupstatistics/nbs/_nbs.py
Example
>>> import nipype.interfaces.cmtk as cmtk >>> nbs = cmtk.NetworkBasedStatistic() >>> nbs.inputs.in_group1 = ['subj1.pck', 'subj2.pck'] >>> nbs.inputs.in_group2 = ['pat1.pck', 'pat2.pck'] >>> nbs.run()
- in_group1a list of items which are a pathlike object or string representing an existing file
Networks for the first group of subjects.
- in_group2a list of items which are a pathlike object or string representing an existing file
Networks for the second group of subjects.
- edge_keya unicode string
Usually “number_of_fibers, “fiber_length_mean”, “fiber_length_std” for matrices made with CMTKSometimes “weight” or “value” for functional networks. (Nipype default value:
number_of_fibers
)- node_position_networka pathlike object or string representing a file
An optional network used to position the nodes for the output networks.
- number_of_permutationsan integer (int or long)
Number of permutations to perform. (Nipype default value:
1000
)- out_nbs_networka pathlike object or string representing a file
Output network with edges identified by the NBS.
- out_nbs_pval_networka pathlike object or string representing a file
Output network with p-values to weight the edges identified by the NBS.
- t_tail‘left’ or ‘right’ or ‘both’
Can be one of “left”, “right”, or “both”. (Nipype default value:
left
)- thresholda float
T-statistic threshold. (Nipype default value:
3
)
- nbs_networka pathlike object or string representing an existing file
Output network with edges identified by the NBS.
- nbs_pval_networka pathlike object or string representing an existing file
Output network with p-values to weight the edges identified by the NBS.
- network_filesa list of items which are a pathlike object or string representing an existing file
Output network with edges identified by the NBS.
-
nipype.interfaces.cmtk.nbs.
ntwks_to_matrices
(in_files, edge_key)¶