Updating code

fALFF.py

@@ -1,17 +1,30 @@
-time_series = masker.fit_transform(sub, confounds=confounds[i])
-
-#Clean data using bandpass filtering Butterworth from Nilearn
 import nilearn
-time_series_cleaned = nilearn.signal.clean(time_series, sessions=None, detrend=True, standardize=None, confounds=None, low_pass=0.25, high_pass=0.01, t_r=2.0, ensure_finite=True)
+from scipy import signal
+import numpy as np
+
+def create_falff(time_series):
+    #Clean data using bandpass filtering Butterworth from Nilearn
+    time_series_cleaned = nilearn.signal.clean(time_series.T, sessions=None, detrend=True,
+                                               standardize=None, confounds=None,
+                                               low_pass=0.25, high_pass=0.01, t_r=2.0,
+                                               ensure_finite=True)
+
+    #Compute power spectra
+    freqs_cleaned, psd_cleaned = signal.welch(time_series_cleaned, fs=0.5, window='boxcar',
+                                              nperseg=None, noverlap=None, nfft=168,
+                                              detrend='constant', return_onesided=False,
+                                              scaling='spectrum', axis=-1, average='mean')
 
-#Compute power spectra
-freqs_cleaned, psd_cleaned = signal.welch(time_series_cleaned, fs=0.5, window='boxcar', nperseg=None, noverlap=None, nfft=168, detrend='constant', return_onesided=False, scaling='spectrum', axis=-1, average='mean')
+    #Compute fALFF
+    fALFF_container = []
+    for row in psd_cleaned:
+        low_freq = row[(freqs_cleaned>=0) & (freqs_cleaned<=0.08)]
+        sum_low_freq = np.sum(low_freq)
+        all_freq = row[(freqs_cleaned>=0) & (freqs_cleaned<=0.25)]
+        sum_all_freq = np.sum(all_freq)
+        fALFF=sum_low_freq/sum_all_freq
 
-#Compute fALFF
-low_freq=psd_cleaned[0,(freqs_cleaned>=0) & (freqs_cleaned<=0.08)]
-sum_low_freq = np.sum(low_freq)
-all_freq = psd_cleaned[0,(freqs_cleaned>=0) & (freqs_cleaned<=0.25)]
-sum_all_freq = np.sum(all_freq)
-fALFF=sum_low_freq/sum_all_freq
+        fALFF_container.append(fALFF)
 
 
+    return fALFF_container