The purpose of this page is just to serve as todo or scratch pad for the development project and to list and share some ideas.

After making changes to the code and/or documentation, this page should remain on the wiki as a reminder of what was done and how it was done. However, there is no guarantee that this page is updated in the end to reflect the final state of the project

So chances are that this page is considerably outdated and irrelevant. The notes here might not reflect the current state of the code, and you should not use this as serious documentation.

How to deal with the forward model units?

See also this small reminder

This refere to a bug submitted by V.Litvak, suggesting to give the lead field a default unit, or at least to have a default when the user wants to deal with the absolute values of the leadfields. (See also the bug #686)

The discussed issues regard, among others, the following topic

  • Units can be estimated by looking at the raw datasets, does the ‘units’ field have to be attached from the beginning?
  • In case of absence of units, they can be recovered by looking at the header
  • Default units could be assigned in case of standard datasets (MEG: T or fT, EEG: uV or V)
  • The user should dispose of function to convert to the wanted units: i.e. I dont know what the units are but i want my data in microvolts

This topic is important and its implementation impacts both on FT and SPM users, so: BE CAREFUL!

Some actions to take (Cristiano)

Here is the list of the functions in the module Forward (folders: _fieldtrip/forward and _fieldtrip/forwar/private) that need the units to be documented in their help (this is necessary also for other modules, like e.g. the fileio module

_fieldtrip/forward

UNITS are required for:

ft_compute_leadfield.m ft_convert_units.m ft_estimate_units.m ft_average_sens.m (?) ft_headmodel_bem_asa.m ft_headmodel_bem_cp.m ft_headmodel_concentricspheres.m ft_headmodel_dipoli.m ft_headmodel_fem_fns.m ft_headmodel_fem_simbio.m ft_headmodel_halfspace.m ft_headmodel_infinite.m ft_headmodel_localspheres.m ft_headmodel_openmeeg.m ft_headmodel_singleshell.m ft_headmodel_singlesphere.m ft_prepare_vol_sens.m ft_transform_headshape.m ft_transform_sens.m ft_transform_vol.m

UNITS are NOT required for

ft_apply_montage.m ft_inside_vol.m ft_voltype.m ft_senstype.m ft_senslabel.m ft_sourcedepth.m (?)

_fieldtrip/forward/private

UNITS are required for:

ama2vol.m eeg_halfspace_medium_leadfield.m eeg_halfspace_monopole.m eeg_leadfield1.m eeg_leadfield4.m eeg_leadfield4_prepare.m eeg_leadfieldb.m halfspace_medium_leadfield.m headcoordinates.m inf_medium_leadfield.m leadfield_fns.m leadfield_simbio.m leadsphere_all.m legs.m magnetic_dipole.m meg_forward.m meg_ini.m monopole_leadfield.m project_elec.m transfer_elec.m

UNITS are NOT required for:

add_mex_source.m bounding_mesh.m compile_mex_list.m elproj.m find_innermost_boundary.m find_outermost_boundary.m fitsphere.m ft_hastoolbox.m get_dip_halfspace.m get_mirror_pos.m getsubfield.m hasyokogawa.m issubfield.m istrue.m keyval.m lmoutr.m loadama.m match_str.m normals.m plgndr.m ptriproj.m solid_angle.m triangle4pt.m warp_apply.m

functions which have the .m file somewhere else (src folder?)

meg_leadfield1.mexa64 routlm.mexa64