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Version 2.2. is currently the default when using the "maxfilter" command at the CBU. Version 2.2. is currently the default on our 64-bit machines (see below for more details).

Maxfilter Version 2.2

Look here for a brief [http://imaging.mrc-cbu.cam.ac.uk/meg/maxintro introduction and literature] about Maxfilter and its main feature, the Signal Space Separation method.

Example

Version 2.2. is currently the default on our 64-bit machines (see below for more details).

This command will apply Maxfilter including Signal Space Separation (SSS), its temporal extension (ST), and movement compensation.

maxfilter  -f input_file.fif  -o output_file.fif  -st  -origin 0 0 45  -frame head  -autobad on  -movecomp  -format short  -force 

For more information on these and other options, see the [attachment:Maxfilter_Manual2.2 Maxfilter 2.2 Manual].

Known problems and bugs

Maxfilter 2.2. cannot do downsampling and filtering at the same time as movement compensation. You will therefore have to run those in a separate step, e.g.

maxfilter  -f input_file.fif  -o output_file.fif  -ds 4  -lpfilt 40

Diagnostics

You can get information about movement parameters using these [http://imaging.mrc-cbu.cam.ac.uk/meg/maxdiagnost scripts to analyse maxfilter output].

How to run Maxfilter at the CBSU

Via the CBU load balancing scripts

maxfilter - defaults to running version 2.2 on l43-l59

maxfilter-2.0 - runs version 2.0 on l24-l42

maxfilter-2.1 - runs v 2.1 on l43-l59

maxfilter-2.2 - runs v 2.2 on l43-l59

maxfilter_gui – runs using maxfilter-2.2 on l43-l59

To run without loadbalancing (i.e. on the current machine)

/neuro/bin/util/maxfilter – will run the default version of maxfilter for that machine (v2.0 on l24-42, v2.2 on l43-59)

The higher numbered machines also have the commands:

/neuro/bin/util/maxfilter-2.1

/neuro/bin/util/maxfilter-2.2

Running maxfilter this way does have the potential pitfall that the command /neuro/bin/util/maxfilter will run different versions depending on which machine you’re on.

By calling the actual binary files

/neuro/bin/util/<machine architecture>/maxfilter

/neuro/bin/util/<machine architecture>/maxfilter-2.1

/neuro/bin/util/<machine architecture>/maxfilter-2.2

CbuMeg: Maxfilter_V2.2 (last edited 2023-03-03 10:53:29 by OlafHauk)