AnalysisGuidelines: Difference between revisions
No edit summary |
No edit summary |
||
Line 16: | Line 16: | ||
addmarkers - necessary to embed the stimulus timing into the CTF dataset |
addmarkers - necessary to embed the stimulus timing into the CTF dataset |
||
parsemarks - Combines markers (i.e optical and |
parsemarks - Combines markers (i.e optical and parallel port) |
||
newDs -f -filter processing.cfg |
newDs -f -filter processing.cfg |
||
Line 30: | Line 30: | ||
Jupyter Notebook |
Jupyter Notebook |
||
Nbdime for notebook version control (a jupyter interface for git) |
Nbdime for notebook version control (a jupyter interface for git) |
||
Jupyter Notebook over remote connection: |
|||
Run one terminal to start the notebook:: |
|||
ssh $USER@$REMOTE_HOST |
|||
In the remote terminal: |
|||
jupyter notebook --no-browser --port=8887 |
|||
Run another terminal to forward the port to your local machine:: |
|||
ssh -N -L localhost:8888:localhost:8887 jstout@ebi |
|||
jupyter notebook --no-browser --port=8887 |
Revision as of 09:26, 10 October 2019
UNDER CONSTRUCTION
Analysis Introduction
1) Anatomical Processing
2) MEG Trigger Configuration
3) MEG Inverse Solution (SAM software)
4) Statistical Analysis
Data collection:
Exact timing of the experiment can be provided in the data acquisition or a set of smaller trials can be provided
CTF Software: DataEditor -data $DATA
thresholdDetect - Detect changes in the analog inputs to determine onset of stimulus addmarkers - necessary to embed the stimulus timing into the CTF dataset
parsemarks - Combines markers (i.e optical and parallel port)
newDs -f -filter processing.cfg
Anatomy Processing:
The MRI processing starts with anat+orig.BRIK and anat+orig.HEAD format. The datasets are opened using AFNI
fiddist.py fiddist2.py - wrapper that accepts two inputs and provides the difference in distance (e.g. MRI and dataset)
Jupyter Notebook
Nbdime for notebook version control (a jupyter interface for git)
Jupyter Notebook over remote connection: Run one terminal to start the notebook:: ssh $USER@$REMOTE_HOST
In the remote terminal: jupyter notebook --no-browser --port=8887
Run another terminal to forward the port to your local machine:: ssh -N -L localhost:8888:localhost:8887 jstout@ebi jupyter notebook --no-browser --port=8887