Update mne.pick_channels() to mne.pick()

README.rst

@@ -70,7 +70,7 @@ If you have sleep EEG data in standard formats (e.g. EDF or BrainVision), you ca
  # Apply a bandpass filter from 0.1 to 40 Hz
  raw.filter(0.1, 40)
  # Select a subset of EEG channels
- raw.pick_channels(['C4-A1', 'C3-A2'])
+ raw.pick(['C4-A1', 'C3-A2'])
 
 How do I get started with YASA?
 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

docs/faq.rst

@@ -31,7 +31,7 @@ If you have polysomnography data in European Data Format (.edf), you can use the
  # Apply a bandpass filter from 0.1 to 40 Hz
  raw.filter(0.1, 40)
  # Select a subset of EEG channels
- raw.pick_channels(['C4-A1', 'C3-A2'])
+ raw.pick(['C4-A1', 'C3-A2'])
 
 .. ----------------------------- VISUALIZE -----------------------------
 .. raw:: html

docs/index.rst

@@ -70,7 +70,7 @@ If you have sleep EEG data in standard formats (e.g. EDF or BrainVision), you ca
  # Apply a bandpass filter from 0.1 to 40 Hz
  raw.filter(0.1, 40)
  # Select a subset of EEG channels
- raw.pick_channels(['C4-A1', 'C3-A2'])
+ raw.pick(['C4-A1', 'C3-A2'])
 
 **********
 

notebooks/08_bandpower.ipynb

@@ -1881,7 +1881,7 @@
  ],
  "source": [
  "# Single channel bandpower\n",
- "yasa.bandpower(raw.copy().pick_channels(['F3']), hypno=hypno_up, include=(2, 3), bandpass=True)"
+ "yasa.bandpower(raw.copy().pick(['F3']), hypno=hypno_up, include=(2, 3), bandpass=True)"
  ]
  },
  {

notebooks/16_EEG-HRV_coupling.ipynb

@@ -139,7 +139,7 @@
  "# Use MNE to load the EDF file\n",
  "raw = mne.io.read_raw_edf(path_edf, preload=True, verbose=False)\n",
  "# Keep only one EEG channel (C4-A1) and one ECG\n",
- "raw.pick_channels(['C4-A1', 'EKG-R-EKG-L'], ordered=True)\n",
+ "raw.pick(['C4-A1', 'EKG-R-EKG-L'], ordered=True)\n",
  "raw"
  ]
  },

yasa/staging.py

@@ -188,7 +188,7 @@ def __init__(self, raw, eeg_name, *, eog_name=None, emg_name=None, metadata=None
  ch_names = ch_names[keep_chan].tolist()
  ch_types = ch_types[keep_chan].tolist()
  # Keep only selected channels (creating a copy of Raw)
- raw_pick = raw.copy().pick_channels(ch_names, ordered=True)
+ raw_pick = raw.copy().pick(ch_names)
 
  # Downsample if sf != 100
  assert sf > 80, "Sampling frequency must be at least 80 Hz."

yasa/tests/test_detection.py

@@ -41,7 +41,7 @@
 # MNE Raw
 data_mne = mne.io.read_raw_fif("notebooks/sub-02_mne_raw.fif", preload=True, verbose=0)
 data_mne.pick_types(eeg=True)
-data_mne_single = data_mne.copy().pick_channels(["F3"])
+data_mne_single = data_mne.copy().pick(["F3"])
 hypno_mne = np.loadtxt("notebooks/sub-02_hypno_30s.txt", dtype=str)
 hypno_mne = hypno_str_to_int(hypno_mne)
 hypno_mne = hypno_upsample_to_data(hypno=hypno_mne, sf_hypno=(1 / 30), data=data_mne)

yasa/tests/test_others.py

@@ -31,7 +31,7 @@
 # Using MNE
 data_mne = mne.io.read_raw_fif("notebooks/sub-02_mne_raw.fif", preload=True, verbose=0)
 data_mne.pick_types(eeg=True)
-data_mne_single = data_mne.copy().pick_channels(["F3"])
+data_mne_single = data_mne.copy().pick(["F3"])
 hypno_mne = np.loadtxt("notebooks/sub-02_hypno_30s.txt", dtype=str)
 hypno_mne = hypno_str_to_int(hypno_mne)
 hypno_mne = hypno_upsample_to_data(hypno=hypno_mne, sf_hypno=(1 / 30), data=data_mne)