Pick a channel from the epoch data?

✉️ Mailing List Archive (read-only)
1

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a channel
from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria
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2

Hi,
There is a method that you can apply to your epochs object to select a
channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a channel
from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

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3

Hi,

I tried that as:
epochs_condition_1.pick_channels(['MEG 0242'])

but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG 0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in pick_channels(self,
ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    187
    188 if inst_has('picks'):
--> 189 self.picks = self.picks[idx]
    190
    191 if inst_has('cals'):

IndexError: index 22 out of bounds 0<=index<0

Could someone please let me know what I am doing wrong?

epochs_condition_1 is:

epochs_condition_1
Out[40]: <Epochs | n_events : 160 (all good), tmin : -0.0999936018905
(s), tmax : 0.999936018905 (s), baseline : (-0.09999360144138336, 0.0)>

Thanks,
Maria

2014-10-27 17:02 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

Hi,
There is a method that you can apply to your epochs object to select a
channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a
channel from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

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4

You should try without the space between MEG and 0242, like this:
epochs_condition_1.pick_channels(['MEG0242'])
Normally it works!

2014-10-27 16:22 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I tried that as:
epochs_condition_1.pick_channels(['MEG 0242'])

but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG 0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    187
    188 if inst_has('picks'):
--> 189 self.picks = self.picks[idx]
    190
    191 if inst_has('cals'):

IndexError: index 22 out of bounds 0<=index<0

Could someone please let me know what I am doing wrong?

epochs_condition_1 is:

epochs_condition_1
Out[40]: <Epochs | n_events : 160 (all good), tmin : -0.0999936018905
(s), tmax : 0.999936018905 (s), baseline : (-0.09999360144138336, 0.0)>

Thanks,
Maria

2014-10-27 17:02 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

Hi,
There is a method that you can apply to your epochs object to select a
channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a
channel from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

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it is
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5

I think that the space is not the problem because at least in the case of
evoked data 'MEG 0242' works. I also tried
condition_1.pick_channels(['MEG0242'])
but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in pick_channels(self,
ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    192 self.cals = self.cals[idx]
    193
--> 194 self.info = pick_info(self.info, idx, copy=False)
    195
    196 if inst_has('_projector'):

/home/mhhakone/Downloads/mne-python/mne/io/pick.pyc in pick_info(info, sel,
copy)
    285
    286 if len(sel) == 0:
--> 287 raise ValueError('Warning : No channels match the
selection.')
    288
    289 info['chs'] = [info['chs'][k] for k in sel]

ValueError: Warning : No channels match the selection.

-Maria

2014-10-27 17:32 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

You should try without the space between MEG and 0242, like this:
epochs_condition_1.pick_channels(['MEG0242'])
Normally it works!

2014-10-27 16:22 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I tried that as:
epochs_condition_1.pick_channels(['MEG 0242'])

but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG 0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    187
    188 if inst_has('picks'):
--> 189 self.picks = self.picks[idx]
    190
    191 if inst_has('cals'):

IndexError: index 22 out of bounds 0<=index<0

Could someone please let me know what I am doing wrong?

epochs_condition_1 is:

epochs_condition_1
Out[40]: <Epochs | n_events : 160 (all good), tmin : -0.0999936018905
(s), tmax : 0.999936018905 (s), baseline : (-0.09999360144138336, 0.0)>

Thanks,
Maria

2014-10-27 17:02 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

Hi,
There is a method that you can apply to your epochs object to select a
channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a
channel from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

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it is
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HelpLine at
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6

Hi, Maria,

what do you get if you type:

'MEG0242' in epochs_condition_1.ch_names

-Denis

2014-10-27 16:44 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

I think that the space is not the problem because at least in the case of
evoked data 'MEG 0242' works. I also tried condition_1.pick_channels(['MEG0242'])
but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    192 self.cals = self.cals[idx]
    193
--> 194 self.info = pick_info(self.info, idx, copy=False)
    195
    196 if inst_has('_projector'):

/home/mhhakone/Downloads/mne-python/mne/io/pick.pyc in pick_info(info,
sel, copy)
    285
    286 if len(sel) == 0:
--> 287 raise ValueError('Warning : No channels match the
selection.')
    288
    289 info['chs'] = [info['chs'][k] for k in sel]

ValueError: Warning : No channels match the selection.

-Maria

2014-10-27 17:32 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

You should try without the space between MEG and 0242, like this:
epochs_condition_1.pick_channels(['MEG0242'])
Normally it works!

2014-10-27 16:22 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I tried that as:
epochs_condition_1.pick_channels(['MEG 0242'])

but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG 0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    187
    188 if inst_has('picks'):
--> 189 self.picks = self.picks[idx]
    190
    191 if inst_has('cals'):

IndexError: index 22 out of bounds 0<=index<0

Could someone please let me know what I am doing wrong?

epochs_condition_1 is:

epochs_condition_1
Out[40]: <Epochs | n_events : 160 (all good), tmin : -0.0999936018905
(s), tmax : 0.999936018905 (s), baseline : (-0.09999360144138336, 0.0)>

Thanks,
Maria

2014-10-27 17:02 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

Hi,
There is a method that you can apply to your epochs object to select a
channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a
channel from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

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it is
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HelpLine at
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7

Hi Denis,

That gives

In [57]: 'MEG0242' in epochs_condition_1.ch_names
Out[57]: False

but

In [58]: 'MEG 0242' in epochs_condition_1.ch_names
Out[58]: True

-Maria

2014-10-27 17:47 GMT+02:00 Denis-Alexander Engemann <
denis.engemann at gmail.com>:

Hi, Maria,

what do you get if you type:

'MEG0242' in epochs_condition_1.ch_names

-Denis

2014-10-27 16:44 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

I think that the space is not the problem because at least in the case of
evoked data 'MEG 0242' works. I also tried condition_1.pick_channels(['MEG0242'])
but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    192 self.cals = self.cals[idx]
    193
--> 194 self.info = pick_info(self.info, idx, copy=False)
    195
    196 if inst_has('_projector'):

/home/mhhakone/Downloads/mne-python/mne/io/pick.pyc in pick_info(info,
sel, copy)
    285
    286 if len(sel) == 0:
--> 287 raise ValueError('Warning : No channels match the
selection.')
    288
    289 info['chs'] = [info['chs'][k] for k in sel]

ValueError: Warning : No channels match the selection.

-Maria

2014-10-27 17:32 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

You should try without the space between MEG and 0242, like this:
epochs_condition_1.pick_channels(['MEG0242'])
Normally it works!

2014-10-27 16:22 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I tried that as:
epochs_condition_1.pick_channels(['MEG 0242'])

but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG 0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    187
    188 if inst_has('picks'):
--> 189 self.picks = self.picks[idx]
    190
    191 if inst_has('cals'):

IndexError: index 22 out of bounds 0<=index<0

Could someone please let me know what I am doing wrong?

epochs_condition_1 is:

epochs_condition_1
Out[40]: <Epochs | n_events : 160 (all good), tmin : -0.0999936018905
(s), tmax : 0.999936018905 (s), baseline : (-0.09999360144138336, 0.0)>

Thanks,
Maria

2014-10-27 17:02 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

Hi,
There is a method that you can apply to your epochs object to select a
channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a
channel from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

_______________________________________________
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Mne_analysis at nmr.mgh.harvard.edu
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whom it is
addressed. If you believe this e-mail was sent to you in error and
the e-mail
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HelpLine at
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8

Ok. The error message tells you what we just saw: you need to pass the
exact channel name to remove the channel from the data. Why you get an
indexing error when passing a valid channel name is unclear to me. Could
you possibly share a mini-verison of your data. e.g. after croping them to
a few samples e.g. using the .crop method.

-Denis

2014-10-27 16:57 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi Denis,

That gives

In [57]: 'MEG0242' in epochs_condition_1.ch_names
Out[57]: False

but

In [58]: 'MEG 0242' in epochs_condition_1.ch_names
Out[58]: True

-Maria

2014-10-27 17:47 GMT+02:00 Denis-Alexander Engemann <
denis.engemann at gmail.com>:

Hi, Maria,

what do you get if you type:

'MEG0242' in epochs_condition_1.ch_names

-Denis

2014-10-27 16:44 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

I think that the space is not the problem because at least in the case
of evoked data 'MEG 0242' works. I also tried condition_1.pick_channels(['MEG0242'])
but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    192 self.cals = self.cals[idx]
    193
--> 194 self.info = pick_info(self.info, idx, copy=False)
    195
    196 if inst_has('_projector'):

/home/mhhakone/Downloads/mne-python/mne/io/pick.pyc in pick_info(info,
sel, copy)
    285
    286 if len(sel) == 0:
--> 287 raise ValueError('Warning : No channels match the
selection.')
    288
    289 info['chs'] = [info['chs'][k] for k in sel]

ValueError: Warning : No channels match the selection.

-Maria

2014-10-27 17:32 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

You should try without the space between MEG and 0242, like this:
epochs_condition_1.pick_channels(['MEG0242'])
Normally it works!

2014-10-27 16:22 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I tried that as:
epochs_condition_1.pick_channels(['MEG 0242'])

but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG 0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c
in inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    187
    188 if inst_has('picks'):
--> 189 self.picks = self.picks[idx]
    190
    191 if inst_has('cals'):

IndexError: index 22 out of bounds 0<=index<0

Could someone please let me know what I am doing wrong?

epochs_condition_1 is:

epochs_condition_1
Out[40]: <Epochs | n_events : 160 (all good), tmin : -0.
0999936018905 (s), tmax : 0.999936018905 (s), baseline :
(-0.09999360144138336, 0.0)>

Thanks,
Maria

2014-10-27 17:02 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>
:

Hi,
There is a method that you can apply to your epochs object to select
a channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a
channel from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

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9

Hi,

pick_channels worked correctly when I restatred Python yesterday, so the
problem is solwed.

Thank you for your help anyway!

-Maria

2014-10-27 18:03 GMT+02:00 Denis-Alexander Engemann <
denis.engemann at gmail.com>:

Ok. The error message tells you what we just saw: you need to pass the
exact channel name to remove the channel from the data. Why you get an
indexing error when passing a valid channel name is unclear to me. Could
you possibly share a mini-verison of your data. e.g. after croping them to
a few samples e.g. using the .crop method.

-Denis

2014-10-27 16:57 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi Denis,

That gives

In [57]: 'MEG0242' in epochs_condition_1.ch_names
Out[57]: False

but

In [58]: 'MEG 0242' in epochs_condition_1.ch_names
Out[58]: True

-Maria

2014-10-27 17:47 GMT+02:00 Denis-Alexander Engemann <
denis.engemann at gmail.com>:

Hi, Maria,

what do you get if you type:

'MEG0242' in epochs_condition_1.ch_names

-Denis

2014-10-27 16:44 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

I think that the space is not the problem because at least in the case
of evoked data 'MEG 0242' works. I also tried condition_1.pick_channels(['MEG0242'])
but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c in
inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    192 self.cals = self.cals[idx]
    193
--> 194 self.info = pick_info(self.info, idx, copy=False)
    195
    196 if inst_has('_projector'):

/home/mhhakone/Downloads/mne-python/mne/io/pick.pyc in pick_info(info,
sel, copy)
    285
    286 if len(sel) == 0:
--> 287 raise ValueError('Warning : No channels match the
selection.')
    288
    289 info['chs'] = [info['chs'][k] for k in sel]

ValueError: Warning : No channels match the selection.

-Maria

2014-10-27 17:32 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com>:

You should try without the space between MEG and 0242, like this:
epochs_condition_1.pick_channels(['MEG0242'])
Normally it works!

2014-10-27 16:22 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I tried that as:
epochs_condition_1.pick_channels(['MEG 0242'])

but got an error:

----> 1 epochs_condition_1.pick_channels(['MEG 0242'])

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
pick_channels(self, ch_names, copy)
    148
    149 idx = [inst.ch_names.index(c) for c in ch_names if c
in inst.ch_names]
--> 150 inst._pick_drop_channels(idx)
    151
    152 return inst

/home/mhhakone/Downloads/mne-python/mne/channels.pyc in
_pick_drop_channels(self, idx)
    187
    188 if inst_has('picks'):
--> 189 self.picks = self.picks[idx]
    190
    191 if inst_has('cals'):

IndexError: index 22 out of bounds 0<=index<0

Could someone please let me know what I am doing wrong?

epochs_condition_1 is:

epochs_condition_1
Out[40]: <Epochs | n_events : 160 (all good), tmin : -0.
0999936018905 (s), tmax : 0.999936018905 (s), baseline :
(-0.09999360144138336, 0.0)>

Thanks,
Maria

2014-10-27 17:02 GMT+02:00 Laetitia Grabot <laetitia.grabot at gmail.com
>:

Hi,
There is a method that you can apply to your epochs object to select
a channel:
epochs.pick_channels()

Laetitia

2014-10-27 15:52 GMT+01:00 Maria Hakonen <maria.hakonen at gmail.com>:

Hi,

I have loaded epochs with mne.read_epochs and would need to pick a
channel from the epoch data. I wonder if there is any function to do this?
mne.pick_channels_evoked seems to work for evoked data, but I haven't found
the corresponding function for epochs.

Thanks,
Maria

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