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Creating epochs

After working with continuous data, we typically have to deal with evoked designs and and there we have to create epochs, meaning we have to slice the continuous data into quite a bunch of small time segments typically just a second or two seconds or so long and we analyze those. So in this App we're going to create epochs from continuous raw data.

First it reads the raw data, then extract the events, the user can add the description of the events, the user need to specify where does the epoch start/end relative to an event onset where does the epoch and also should we apply some form of baseline correction. To actually create these epochs then we use the mne function called mne.Epochs object, so we're going to pass the raw data we intend to cut into epochs, we have to tell it which events (events numpy array) shall be used to actually cut these epochs, we're also going to pass in the events dictionary, this will be used to assign human readable names, the time relative to each event at which to start and end each epoch and the baseline correction.

 

Links to the App:

https://github.com/zahransa/app-epoch

https://brainlife.io/app/625d3130cc8ab2b339ea2692

 

Inputs of the App:

Files

Format

Datatype

Description

Optional

Files

Format

Datatype

Description

Optional

Raw data

.fif

neuro/meg/fif

Data to process

No

Events

.tsv

neuro/meg/fif

Channels

Yes

Configuation parameter

Type

Description

Configuation parameter

Type

Description

tmin

number

The time relative to each event at which to start epoch (in seconds)

tmax

number

The time relative to each event at which to end each epoch (in seconds)

event_id_condition

string

Mapping the integer Event ID to experiment descriptions. The description will be used to label each event with more descriptive text rather than the original event ID

Outputs of the App:

File

Format

Datatype

Description

File

Format

Datatype

Description

Epochs

.fif

neuro/meeg/mne/epochs

Epoched data

Evoked

.fif

neuro/meeg/mne/evoked

Evoked data

Report

.html

html

Visualization of raw, event and epoched data