How many GIF parcellations are included in the SVT visualisation?

[thenineteen]

What is the total number of different GIF parcellations supported by our programme? per hemisphere and in total please

e.g. 80 per hemisphere = 160 in total.

I need this to calculate the naive baseline probability of a semiology to localise to a given brain region, as benchmark for summary forrest plots

[fepegar]

According to the color table generated by NiftyWeb, of which we have an adaptation in this repo, there are 156 possible structures/parcels/segments (after discarding the first five).

That doesn't mean all are present in the parcellation/segmentation we are using. There is some information about this in my comments in #184.

The parcellation we are using seems to have 137 different structures, discarding the first five as before:

In [1]: import numpy as np

In [2]: import nibabel as nib

In [3]: data = nib.load('slicer/Resources/Image/MNI_152_gif.nii.gz').get_data()

In [4]: len(np.unique(data[data > 16]))
Out[4]: 137

[thenineteen]

I get different numbers depending on the exact query, but some of these GIF parcellations must be ignored then if we only have 137:

The below gives 146

from mega_analysis import Semiology, Laterality

patient = Semiology('Tonic',
    symptoms_side=Laterality.LEFT,
    dominant_hemisphere=Laterality.LEFT,
    normalise_to_localising_values=False,  # default is False
)

patient.granular = False
patient.top_level_lobes = True
heatmap = patient.get_num_datapoints_dict()

len(heatmap)

Additionally, there are 115 parcellations when I looked at marginal probabilities for each GIF, of which the following are zero:

39	40	41	42	72	73	74

leaving around 108 non-zero