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commit 1b8342bc15970f2d8352b206dc0a9ce3c025e150 Author: Emily Ruzich <[email protected]> Date: Tue May 31 15:34:16 2011 -0400 fixing manual --- doc/source/manual/matlab.rst | 371 +++++++++++++++++++++++-------------------- 1 file changed, 201 insertions(+), 170 deletions(-) diff --git a/doc/source/manual/matlab.rst b/doc/source/manual/matlab.rst index 502b770..b6f5c08 100755 --- a/doc/source/manual/matlab.rst +++ b/doc/source/manual/matlab.rst @@ -78,13 +78,13 @@ they are listed in :ref:`BGBEFADJ`. +--------------------------------+--------------------------------------------------------------+ | fiff_pick_channels_evoked | Pick desired channels from evoked-response data according | | | to include and exclude lists. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_pick_info | Modify measurement info to include only selected channels. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_pick_types | Create a selector to pick desired channels from data | | | according to channel types (MEG, EEG, STIM) in combination | | | with include and exclude lists. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_pick_types_evoked | Pick desired channels from evoked-response data according | | | to channel types (MEG, EEG, STIM) in combination with | | | include and exclude lists. | @@ -96,17 +96,17 @@ they are listed in :ref:`BGBEFADJ`. | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_reset_ch_pos | Reset channel position transformation to the default values | | | present in the file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_transform_eeg_chs | Transform electrode positions to another coordinate frame. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_transform_meg_chs | Apply a coordinate transformation to the sensor location | | | data to bring the integration points to another coordinate | | | frame. | +--------------------------------+--------------------------------------------------------------+ - + .. table:: Basic reading routines. +--------------------------------+--------------------------------------------------------------+ @@ -114,24 +114,24 @@ they are listed in :ref:`BGBEFADJ`. +================================+==============================================================+ | fiff_define_constants | Define a structure which contains the constant relevant | | | to fif files. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_dir_tree_find | Find nodes of a given type in a directory tree structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_list_dir_tree | List a directory tree structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_make_dir_tree | Create a directory tree structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_open | Open a fif file and create the directory tree structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_read_named_matrix | Read a named matrix from a fif file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_read_tag | Read one tag from a fif file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_read_tag_info | Read the info of one tag from a fif file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_split_name_list | Split a colon-separated list of names into a cell array | | | of strings. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. table:: Writing routines. @@ -139,55 +139,55 @@ they are listed in :ref:`BGBEFADJ`. | Function | Purpose | +================================+==============================================================+ | fiff_end_block | Write a FIFF_END_BLOCK tag. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_end_file | Write the standard closing. | +--------------------------------+--------------------------------------------------------------+ | fiff_start_block | Write a FIFF_START_BLOCK tag. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_start_file | Write the appropriate beginning of a file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_ch_info | Write a channel information structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_coord_trans | Write a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_ctf_comp | Write CTF compensation data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_dig_point | Write one digitizer data point. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_complex | Write single-precision complex numbers. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_complex_matrix | Write a single-precision complex matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_double | Write double-precision floats. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_double_complex | Write double-precision complex numbers. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ |fiff_write_double_complex_matrix| Write a double-precision complex matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_double_matrix | Write a double-precision matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_evoked | Write an evoked-reponse data file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_float | Write single-precision floats. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_float_matrix | Write a single-precision matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_id | Write an id tag. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_int | Write 32-bit integers. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_int_matrix | Write a matrix of 32-bit integers. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_name_list | Write a name list. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_named_matrix | Write a named matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_proj | Write SSP data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_short | Write 16-bit integers. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_string | Write a string. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. table:: High-level data writing routines. @@ -195,14 +195,14 @@ they are listed in :ref:`BGBEFADJ`. | Function | Purpose | +================================+==============================================================+ | fiff_write_evoked | Write an evoked-response data file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_finish_writing_raw | Write the closing tags to a raw data file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_start_writing_raw | Start writing raw data file, *i.e.*, write the measurement | | | information. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_dig_file | Write a fif file containing digitization data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | fiff_write_raw_buffer | Write one raw data buffer. This is used after a call to | | | fiff_start_writing_raw. | +--------------------------------+--------------------------------------------------------------+ @@ -214,9 +214,9 @@ they are listed in :ref:`BGBEFADJ`. +================================+==============================================================+ | mne_add_coil_defs | Add coil definitions to an array of channel information | | | structures. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_load_coil_def | Load a coil definition file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. table:: Routines for software gradient compensation and signal-space projection. @@ -225,23 +225,23 @@ they are listed in :ref:`BGBEFADJ`. +================================+==============================================================+ | mne_compensate_to | Apply or remove CTF software gradient compensation from | | | evoked-response data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_get_current_comp | Get the state of software gradient compensation from | | | measurement info. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_make_compensator | Make a compensation matrix which switches the status of | | |CTF software gradient compensation from one state to another. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_make_projector_info | Create a signal-space projection operator with the | | | projection item definitions and cell arrays of channel names | | | and bad channel names as input. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_make_projector_info | Like mne_make_projector but uses the measurement info | | | structure as input. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_set_current_comp | Change the information about the compensation status in | | | measurement info. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. table:: High-level routines for reading MNE data files. @@ -249,30 +249,30 @@ they are listed in :ref:`BGBEFADJ`. | Function | Purpose | +================================+==============================================================+ | mne_pick_channels_cov | Pick desired channels from a sensor covariance matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_pick_channels_forward | Pick desired channels (rows) from a forward solution. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_bem_surfaces | Read triangular tessellations of surfaces for | | | boundary-element models. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_cov | Read a covariance matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_epoch | Read an epoch of data from the output file of mne_epochs2mat.| - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_events | Read an event list from a fif file produced by | | | mne_browse_raw or mne_process_raw. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_forward_solution | Read a forward solution from a fif file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_inverse_operator | Read an inverse operator from a fif file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_morph_map | Read an morphing map produced with mne_make_morph_maps, see | | | :ref:`CHDBBHDH`. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_noise_cov | Read a noise-covariance matrix from a fif file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_source_spaces | Read source space information from a fif file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. table:: High-level routines for writing MNE data files. @@ -280,18 +280,18 @@ they are listed in :ref:`BGBEFADJ`. | Function | Purpose | +================================+==============================================================+ | mne_write_cov | Write a covariance matrix to an open file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_cov_file | Write a complete file containing just a covariance matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_events | Write a fif format event file compatible with mne_browse_raw | | | and mne_process_raw. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_inverse_sol_stc | Write stc files containing an inverse solution or other | | | dynamic data on the cortical surface. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_inverse_sol_w | Write w files containing an inverse solution or other static | | | data on the cortical surface. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. _BABBDDAI: @@ -302,39 +302,39 @@ they are listed in :ref:`BGBEFADJ`. +================================+==============================================================+ | mne_read_stc_file | Read data from one stc file. The vertex numbering in the | | | returned structure will start from 0. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_stc_file1 | Read data from one stc file. The vertex numbering in the | | | returned structure will start from 1. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_w_file | Read data from one w file. The vertex numbering in the | | | returned structure will start from 0. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_w_file1 | Read data from one w file. The vertex numbering in the | | | returned structure will start from 1. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_stc_file | Write a new stc file. It is assumed the the vertex numbering | | | in the input data structure containing the stc information | | | starts from 0. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_stc_file1 | Write a new stc file. It is assumed the the vertex numbering | | | in the input data structure containing the stc information | | | starts from 1. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_w_file | Write a new w file. It is assumed the the vertex numbering | | | in the input data structure containing the w file | | | information starts from 0. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_w_file1 | Write a new w file. It is assumed the the vertex numbering | | | in the input data structure containing the w file | | | information starts from 1. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_label_file | Read a label file (ROI). | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_label_file | Write a label file (ROI). | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_label_time_courses | Extract time courses corresponding to a label from an | | | stc file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. table:: Routines for reading FreeSurfer surfaces. @@ -342,94 +342,92 @@ they are listed in :ref:`BGBEFADJ`. | Function | Purpose | +================================+==============================================================+ | mne_read_curvature | Read a curvature file. | - +--------------------------------+--------------------------------------------------------------+ - | mne_read_surface | Read one surface, return the vertex locations and | + +--------------------------------+--------------------------------------------------------------+ + | mne_read_surface | Read one surface, return the vertex locations and | | | triangulation info. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_read_surfaces | Read surfaces corresponding to one or both hemispheres. | | Optionally read curvature information and add derived | | surface data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_reduce_surface | Reduce the number of triangles on a surface using the | | | reducepatch Matlab function. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_write_surface | Write a FreeSurfer surface file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. _BGBEGFBD: .. table:: Utility functions. - +--------------------------------+--------------------------------------------------------------+ | Function | Purpose | +================================+==============================================================+ | mne_block_diag | Create a sparse block-diagonal matrix out of a vector. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_combine_xyz | Calculate the square sum of the three Cartesian components | - | | of several vectors listed in one row or column vector. | - +--------------------------------+--------------------------------------------------------------+ + | | of several vectors listed in one row or column vector. | + +--------------------------------+--------------------------------------------------------------+ | mne_file_name | Compose a file name relative to $MNE_ROOT. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_find_channel | Find a channel by name from measurement info. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_find_source_space_hemi | Determine whether a given source space belongs to the left | - | | or right hemisphere. | - +--------------------------------+--------------------------------------------------------------+ + | | or right hemisphere. | + +--------------------------------+--------------------------------------------------------------+ | mne_fread3 | Read a three-byte integer. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_fwrite3 | Write a three-byte integer. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_make_combined_event_file | Combine data from several trigger channels into one event | - | | file. | - +--------------------------------+--------------------------------------------------------------+ + | | file. | + +--------------------------------+--------------------------------------------------------------+ | mne_omit_first_line | Omit first line from a multi-line message. This routine is | - | | useful for formatting error messages. | - +--------------------------------+--------------------------------------------------------------+ + | | useful for formatting error messages. | + +--------------------------------+--------------------------------------------------------------+ | mne_prepare_inverse_operator | Prepare inverse operator data for calculating L2 | - | | minimum-norm solutions and dSPM. | - +--------------------------------+--------------------------------------------------------------+ + | | minimum-norm solutions and dSPM. | + +--------------------------------+--------------------------------------------------------------+ | mne_setup_toolbox | Set up the MNE Matlab toolbox. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_transform_coordinates | Transform locations between different coordinate systems. | - | | This function uses the output file from | - | | mne_collect_transforms described in :ref:`BABBIFIJ` as input.| - +--------------------------------+--------------------------------------------------------------+ + | | This function uses the output file from | + | | mne_collect_transforms described in :ref:`BABBIFIJ` as input.| + +--------------------------------+--------------------------------------------------------------+ | mne_transpose_named_matrix | Create a transpose of a named matrix. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_transform_source_space_to | Transform source space data to another coordinate frame. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ .. _BGBEFADJ: .. table:: Examples demostrating the use of the toolbox. - +--------------------------------+--------------------------------------------------------------+ | Function | Purpose | +================================+==============================================================+ | mne_ex_average_epochs | Example of averaging epoch data produced by mne_epochs2mat, | | | see :ref:`BEHFIDCB`. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_cancel_noise | Example of noise cancellation procedures. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_compute_inverse | Example of computing a L2 minimum-norm estimate or a dSPM | | | solution. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_data_sets | Example of listing evoked-response data sets. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_evoked_grad_amp | Compute tangential gradient amplitudes from planar | | | gradiometer data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_read_epochs | Read epoch data from a raw data file. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_read_evoked | Example of reading evoked-response data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_read_raw | Example of reading raw data. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ | mne_ex_read_write_raw | Example of processing raw data (read and write). | - +--------------------------------+--------------------------------------------------------------+ - + +--------------------------------+--------------------------------------------------------------+ + .. note:: In order for the inverse operator calculation to work correctly with data processed with the Elekta-Neuromag Maxfilter (TM) software, the so-called *processing history* block must be included in data files. Previous versions of the MNE Matlab functions did not copy processing history to files saved. As of March 30, 2009, the Matlab toolbox routines fiff_start_writing_raw and fiff_write_evoked have been enchanced to include these data to the output file as appr [...] @@ -523,46 +521,80 @@ The documented structures are: .. _BGBJHCGD: .. table:: FIFF constants. - +--------------------------------+--------------------------------------------------------------+ - | Function | Purpose | - +================================+==============================================================+ - | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ - ================================ ======= ====================================================================================================== - Name Value Description - ================================ ======= ====================================================================================================== - FIFFV_MEG_CH 1 This is a MEG channel. - FIFFV_REF_MEG_CH 301 This a reference MEG channel, located far away from the head. - FIFFV_EEF_CH 2 This is an EEG channel. - FIFFV_MCG_CH 201 This a MCG channel. - FIFFV_STIM_CH 3 This is a digital trigger channel. - FIFFV_EOG_CH 202 This is an EOG channel. - FIFFV_EMG_CH 302 This is an EMG channel. - FIFFV_ECG_CH 402 This is an ECG channel. - FIFFV_MISC_CH 502 This is a miscellaneous analog channel. - FIFFV_RESP_CH 602 This channel contains respiration monitor output. - FIFFV_COORD_UNKNOWN 0 Unknown coordinate frame - FIFFV_COORD_DEVICE 1 The MEG device coordinate frame - FIFFV_COORD_ISOTRAK 2 The Polhemus digitizer coordinate frame (does not appear in data files). - FIFFV_COORD_HPI 3 HPI coil coordinate frame (does not appear in data files) - FIFFV_COORD_HEAD 4 The MEG head coordinate frame (Neuromag convention). - FIFFV_COORD_MRI 5 The MRI coordinate frame - FIFFV_COORD_MRI_SLICE 6 The coordinate frame of a single MRI slice. - FIFFV_COORD_MRI_DISPLAY 7 The preferred coordinate frame for displaying the MRIs (used by MRIlab). - FIFFV_COORD_DICOM_DEVICE 8 The DICOM coordinate frame (does not appear in files). - FIFFV_COORD_IMAGING_DEVICE 9 A generic imaging device coordinate frame (does not appear in files). - FIFFV_MNE_COORD_TUFTS_EEG 300 The Tufts EEG data coordinate frame - FIFFV_MNE_COORD_CTF_DEVICE 1001 The CTF device coordinate frame (does not appear in files) - FIFFV_MNE_COORD_CTF_HEAD 1004 The CTF/4D head coordinate frame - FIFFV_ASPECT_AVERAGE 100 Data aspect: average. - FIFFV_ASPECT_STD_ERR 101 Data aspect: standard error of mean. - FIFFV_ASPECT_SINGLE 102 Single epoch. - FIFFV_ASPECT_SUBAVERAGE 103 One subaverage. - FIFFV_ASPECT_ALTAVERAGE 104 One alternating (plus-minus) subaverage. - FIFFV_ASPECT_SAMPLE 105 A sample cut from raw data. - FIFFV_ASPECT_POWER_DENSITY 106 Power density spectrum. - FIFFV_ASPECT_DIPOLE_WAVE 200 The time course of an equivalent current dipole - FIFFV_BEM_SURF_ID_UNKNOWN -1 Unknown BEM surface + +----------------------------+-------+----------------------------------------------------------+ + | Name | Value | Purpose | + +============================+=======+==========================================================+ + | FIFFV_MEG_CH | 1 | This is a MEG channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_REF_MEG_CH | 301 | This a reference MEG channel, located far away from the | + | | | head. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_EEF_CH | 2 | This is an EEG channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_MCG_CH | 201 | This a MCG channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_STIM_CH | 3 | This is a digital trigger channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_EOG_CH | 202 | This is an EOG channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_EMG_CH | 302 | This is an EMG channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ECG_CH | 402 | This is an ECG channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_MISC_CH | 502 | This is a miscellaneous analog channel. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_RESP_CH | 602 | This channel contains respiration monitor output. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_UNKNOWN | 0 | Unknown coordinate frame. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_DEVICE | 1 | The MEG device coordinate frame. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_ISOTRAK | 2 | The Polhemus digitizer coordinate frame (does not appear | + | | | in data files). | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_HPI | 3 | HPI coil coordinate frame (does not appear in data | + | | | files). | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_HEAD | 4 | The MEG head coordinate frame (Neuromag convention). | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_MRI | 5 | The MRI coordinate frame. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_MRI_SLICE | 6 | The coordinate frame of a single MRI slice. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_MRI_DISPLAY | 7 | The preferred coordinate frame for displaying the MRIs | + | | | (used by MRIlab). | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_DICOM_DEVICE | 8 | The DICOM coordinate frame (does not appear in files). | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_COORD_IMAGING_DEVICE | 9 | A generic imaging device coordinate frame (does not | + | | | appear in files). | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_MNE_COORD_TUFTS_EEG | 300 | The Tufts EEG data coordinate frame. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_MNE_COORD_CTF_DEVICE | 1001 | The CTF device coordinate frame (does not appear in | + | | | files). | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_MNE_COORD_CTF_HEAD | 1004 | The CTF/4D head coordinate frame. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_AVERAGE | 100 | Data aspect: average. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_STD_ERR | 101 | Data aspect: standard error of mean. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_SINGLE | 102 | Single epoch. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_SUBAVERAGE | 103 | One subaverage. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_ALTAVERAGE | 104 | One alternating (plus-minus) subaverage. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_SAMPLE | 105 | A sample cut from raw data. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_POWER_DENSITY | 106 | Power density spectrum. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_ASPECT_DIPOLE_WAVE | 200 | The time course of an equivalent current dipole. | + +----------------------------+-------+----------------------------------------------------------+ + | FIFFV_BEM_SURF_ID_UNKNOWN | -1 | Unknown BEM surface. | + +----------------------------+-------+----------------------------------------------------------+ + FIFFV_BEM_SURF_ID_BRAIN 1 The inner skull surface FIFFV_BEM_SURF_ID_SKULL 3 The outer skull surface FIFFV_BEM_SURF_ID_HEAD 4 The scalp surface @@ -671,12 +703,11 @@ The documented structures are: .. _BGBDHBIF: .. table:: The trans structure. - +--------------------------------+--------------------------------------------------------------+ | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ======== ============== ===================================================================================================================================================================== Field Data type Description ======== ============== ===================================================================================================================================================================== @@ -692,7 +723,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ======== ============ ========================================================================================================================== Field Data type Description ======== ============ ========================================================================================================================== @@ -708,7 +739,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ============== ======================= ======================================================================================== Field Data type Description ============== ======================= ======================================================================================== @@ -730,7 +761,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ============== ============== ======================================================================================================================================================================================================================================================================================================================================================= Field Data type Description ============== ============== ======================================================================================================================================================================================================================================================================================================================================================= @@ -756,7 +787,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ========= =============== ========================================================================================================================================================= Field Data type Description ========= =============== ========================================================================================================================================================= @@ -772,7 +803,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ================== =============== =========================================================================================================================================================================================================== Field Data type Description ================== =============== =========================================================================================================================================================================================================== @@ -793,7 +824,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ============= ============== ===================================================================================================================== Field Data type Description ============= ============== ===================================================================================================================== @@ -823,7 +854,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ =============== ================== ============================================================================================================================================================================================================================================================================ Field Data type Description =============== ================== ============================================================================================================================================================================================================================================================================ @@ -859,7 +890,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ========= ================== ====================================================================================================== Field Data type Description ========= ================== ====================================================================================================== @@ -884,7 +915,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ ============== ==================== ============================================================================================================================================================================================================================= Field Data type Description ============== ==================== ============================================================================================================================================================================================================================= @@ -909,7 +940,7 @@ The documented structures are: | Function | Purpose | +================================+==============================================================+ | fiff_invert_transform | Invert a coordinate transformation structure. | - +--------------------------------+--------------------------------------------------------------+ + +--------------------------------+--------------------------------------------------------------+ =============== ====================== ============================================================================================================================================================== Field Data type Description =============== ====================== ============================================================================================================================================================== -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/python-mne.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
