Extracting synapses placement along depth axis about bmtk HOT 2 OPEN

‘sections': ['apical'], 'distance_range': [0.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [50.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [100.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [150.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [200.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [300.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [400.0, 1.0e20],

from bmtk.

I've also tried changing the morphology for the very same task. This time I've used a layer23 excitatory neuron. Specifically I've used the same code as reported above. I've just changed the following:

1. morphology='Cux2-CreERT2_Ai14-211772.05.02.01_496085150_m.swc',
2. rotation_angle_zaxis=-2.7288499560000004

Here follows the same plots as above, but for this pyramidal neuron.

‘sections': ['apical'], 'distance_range': [0.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [50.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [100.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [200.0, 1.0e20],

‘sections': ['apical'], 'distance_range': [300.0, 1.0e20],

Even in this case, the values of coord_x seem to better capture the depth profile distrbution of the synapses: this time, however, they take negative values for some reason.

Any help would be truly appreciated.

Thanks in advance,

Nicolò Meneghetti

from bmtk.