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makeparam.py
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Created
Fri, Apr 19, 02:12
Size
5 KB
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text/x-python
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Sun, Apr 21, 02:12 (2 d)
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blob
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Attached To
rEEGCONN EEG_dynamic_task_functional_connectivity
makeparam.py
View Options
import
json
from
functions
import
get_biosemi_to_1020_mapping
'''
'methods': imcoh, pli, coh, plv, etc. Any method available
for mne.connectivity.spectral_connectivity()
'electrode_subset': A list of electrodes: ['A1', 'A2'] or
a pre-defined set of '32el10-20' or '64el10-20'
'select_x_best_electrodes': int or 'All'. If int is given, it will select the most statistically
significant set of the corresponding 'electrode_subset' (see above).
'change_el_labels': change electrode labels to 10-20 standard
'frequency_band': A bandwidth (pair of [fmin, fmax]) in which connectivity will be computed
'tmin_tmax': time around the stimulus (pair of [tmin, tmax])in seconds. If None,, [tmin, tmax] = [-0.2, 0.5]
'CSD_parameters': None or a pair of [stiffnes, lambda^2]: stiffness: 2-5, lambda^2: 0-10e-5
'conditions': 'responder' and/or 'proposer'
'subjects': list of subjects
'add_label': additional label
methods, electrode_subset, select_x_best_electrodes, CSD_parameters are mutli-loop.
subjects and add_label are fixed for all loops (1 value)
'''
filename
=
"npm_8-13Hz_0.7s_P.json"
# filename = "npm_8-13Hz_0.7s_R.json"
# filename = "npm_14-30Hz_0.7s_P.json"
# filename = "npm_14-30Hz_0.7s_R.json"
param_dict
=
{
'methods'
:
[
'imcoh'
],
'conditions'
:
[
'proposer'
],
'frequency_band'
:
[[
8
,
13
]],
'electrode_subset'
:
[
'32el10-20'
],
'select_x_best_electrodes'
:
[
"All"
],
# int or 'All'. If int is given, it will select the most statistically
# significant set of the corresponding 'electrode_subset' (see above).
'change_el_labels'
:
True
,
'tmin_tmax'
:
[[
-
2.25
,
-
1.55
],
[
-
1.55
,
-
0.85
],
[
-
0.7
,
0.0
],
[
-
0.35
,
0.35
],
[
0.0
,
0.7
],
[
0.85
,
1.55
],
[
1.55
,
2.25
]],
'CSD_parameters'
:
[[
3
,
0.001
]],
# stiffness 2-5, lambda^2 0-10e-5
'datapath'
:
"/mnt/data/NoCSD/"
,
'subjects'
:
[
'000'
,
'007'
,
'008'
,
'009'
,
'010'
,
'011'
,
'012'
,
'013'
,
'014'
,
'015'
,
'016'
,
'017'
,
'018'
,
'020'
,
'021'
,
'023'
,
'025'
,
'027'
,
'028'
,
'029'
,
'030'
,
'031'
,
'032'
,
'034'
,
'101'
,
'102'
,
'106'
,
'109'
,
'110'
,
'111'
,
'112'
,
'113'
,
'114'
,
'115'
,
'116'
,
'117'
,
'121'
,
'124'
,
'125'
,
'126'
,
'127'
,
'128'
,
'199'
],
'add_label'
:
""
,
'result_dir'
:
"/mnt/data/conn_results/results/"
}
while
len
(
param_dict
[
'electrode_subset'
])
>
len
(
param_dict
[
'select_x_best_electrodes'
]):
param_dict
[
'select_x_best_electrodes'
]
.
append
(
'All'
)
for
i
,
sel_ch
in
enumerate
(
param_dict
[
'electrode_subset'
]):
if
sel_ch
==
'All'
:
param_dict
[
'electrode_subset'
][
i
]
=
[
'A1'
,
'A2'
,
'A3'
,
'A4'
,
'A5'
,
'A6'
,
'A7'
,
'A8'
,
'A9'
,
'A10'
,
'A11'
,
'A12'
,
'A13'
,
'A14'
,
'A15'
,
'A16'
,
'A17'
,
'A18'
,
'A19'
,
'A20'
,
'A21'
,
'A22'
,
'A23'
,
'A24'
,
'A25'
,
'A26'
,
'A27'
,
'A28'
,
'A29'
,
'A30'
,
'A31'
,
'A32'
,
'B1'
,
'B2'
,
'B3'
,
'B4'
,
'B5'
,
'B6'
,
'B7'
,
'B8'
,
'B9'
,
'B10'
,
'B11'
,
'B12'
,
'B13'
,
'B14'
,
'B15'
,
'B16'
,
'B17'
,
'B18'
,
'B19'
,
'B20'
,
'B21'
,
'B22'
,
'B23'
,
'B24'
,
'B25'
,
'B26'
,
'B27'
,
'B28'
,
'B29'
,
'B30'
,
'B31'
,
'B32'
,
'C1'
,
'C2'
,
'C3'
,
'C4'
,
'C5'
,
'C6'
,
'C7'
,
'C8'
,
'C9'
,
'C10'
,
'C11'
,
'C12'
,
'C13'
,
'C14'
,
'C15'
,
'C16'
,
'C17'
,
'C18'
,
'C19'
,
'C20'
,
'C21'
,
'C22'
,
'C23'
,
'C24'
,
'C25'
,
'C26'
,
'C27'
,
'C28'
,
'C29'
,
'C30'
,
'C31'
,
'C32'
,
'D1'
,
'D2'
,
'D3'
,
'D4'
,
'D5'
,
'D6'
,
'D7'
,
'D8'
,
'D9'
,
'D10'
,
'D11'
,
'D12'
,
'D13'
,
'D14'
,
'D15'
,
'D16'
,
'D17'
,
'D18'
,
'D19'
,
'D20'
,
'D21'
,
'D22'
,
'D23'
,
'D24'
,
'D25'
,
'D26'
,
'D27'
,
'D28'
,
'D29'
,
'D30'
,
'D31'
,
'D32'
]
elif
sel_ch
==
'32el10-20'
:
electrode_mapping
=
get_biosemi_to_1020_mapping
(
32
)
param_dict
[
'electrode_subset'
][
i
]
=
list
(
electrode_mapping
.
keys
())
elif
sel_ch
==
'64el10-20'
:
electrode_mapping
=
get_biosemi_to_1020_mapping
(
64
)
param_dict
[
'electrode_subset'
][
i
]
=
list
(
electrode_mapping
.
keys
())
else
:
raise
ValueError
(
"Wrong channel selection parameter: should be a list of channel labels or 'All'"
)
if
param_dict
[
'datapath'
][
-
1
]
is
not
"/"
:
param_dict
[
'datapath'
]
+=
"/"
if
param_dict
[
'result_dir'
][
-
1
]
is
not
"/"
:
param_dict
[
'result_dir'
]
+=
"/"
json_dict
=
json
.
dumps
(
param_dict
)
f
=
open
(
filename
,
"w"
)
f
.
write
(
json_dict
)
f
.
close
()
print
(
param_dict
)
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