diff --git a/_data/tag/artifact.yml b/_data/tag/artifact.yml index 585b5f698..b246e9107 100644 --- a/_data/tag/artifact.yml +++ b/_data/tag/artifact.yml @@ -52,9 +52,6 @@ - name: Cleaning artifacts using ICA link: /tutorial/ica_artifact_cleaning -- name: Extracting the brain state and events from continuous sleep EEG - link: /tutorial/sleep - - name: Visual or manual artifact rejection link: /tutorial/visual_artifact_rejection diff --git a/_data/tag/ct.yml b/_data/tag/ct.yml index ed1b11ee6..cab385680 100644 --- a/_data/tag/ct.yml +++ b/_data/tag/ct.yml @@ -1,24 +1,3 @@ -- name: MEG dataformats - link: /dataformat/meg - -- name: Connectivity estimates for EEG/MEG time series data - link: /development/module/connectivity - -- name: CTF - link: /development/realtime/ctf - -- name: Converting an example MEG dataset for sharing in BIDS - link: /example/bids_meg - -- name: Conditional Granger causality in the frequency domain - link: /example/connectivity_conditional_granger - -- name: Fit a dipole to the tactile ERF after mechanical stimulation - link: /example/dipolefit_somatosensory_erf - -- name: Fixing a missing channel - link: /example/fixing_a_missing_sensor - - name: How to incorporate head movements in MEG analysis link: /example/headmovement_meg @@ -31,96 +10,30 @@ - name: Combine MEG with Eyelink eyetracker data link: /example/meg_eyelink -- name: Interpolating data from the CTF151 to the CTF275 sensor array using megrealign - link: /example/megrealign - - name: Use denoising source separation (DSS) to remove ECG artifacts link: /example/use_denoising_source_separation_dss_to_remove_ecg_artifacts -- name: Can I create an artificial CTF dataset using MATLAB? - link: /example/writing_simulated_data_to_a_ctf_dataset - -- name: Can I use Octave instead of MATLAB? - link: /faq/can_i_use_octave_instead_of_matlab - -- name: Can I compare EEG channels between different electrode caps? - link: /faq/capmapping - - name: Which datasets are used in the documentation and where are they used? link: /faq/datasets -- name: How should I specify the fiducials for electrode realignment? - link: /faq/fiducial - -- name: How are electrodes, magnetometers or gradiometers described? - link: /faq/how_are_electrodes_magnetometers_or_gradiometers_described - -- name: How are the Left and Right Pre-Auricular (LPA and RPA) points defined? - link: /faq/how_are_the_lpa_and_rpa_points_defined - -- name: How can I anonymize or deidentify a CTF dataset? - link: /faq/how_can_i_anonymize_a_ctf_dataset - -- name: How can I change the head localization in a CTF dataset? - link: /faq/how_can_i_change_the_head_localization_in_a_ctf_dataset - - name: How can I consistently represent artifacts in my data? link: /faq/how_can_i_consistently_represent_artifacts_in_my_data -- name: How can I convert an anatomical MRI from DICOM into CTF format? - link: /faq/how_can_i_convert_an_anatomical_mri_from_dicom_into_ctf_format - -- name: How can I fix a corrupt CTF meg4 file? - link: /faq/how_can_i_fix_a_corrupt_ctf_meg4_data_file - -- name: How can I fix a corrupt CTF res4 header file? - link: /faq/how_can_i_fix_a_corrupt_ctf_res4_header_file - -- name: How can I inspect the electrode impedances of my data? - link: /faq/how_can_i_inspect_the_electrode_impedances_of_my_data - - name: How can I interpret the different types of padding in FieldTrip? link: /faq/how_can_i_interpret_the_different_types_of_padding_that_i_find_when_dealing_with_artifacts -- name: How can I read corrupted (unsaved) CTF data? - link: /faq/how_can_i_read_corrupted_unsaved_ctf_data - - name: How can I use the databrowser? link: /faq/how_can_i_use_the_databrowser -- name: How does the CTF higher-order gradiometer work? - link: /faq/how_does_the_ctf_higher-order_gradiometer_work - - name: How does the filter padding in preprocessing work? link: /faq/how_does_the_filter_padding_in_preprocessing_work -- name: How should I report the positions of the fiducial points on the head? - link: /faq/how_should_i_report_the_positions_of_the_fiducial_points_on_the_head - - name: I am getting strange artifacts in figures that use opacity link: /faq/i_am_getting_strange_artifacts_in_figures_that_use_opacity -- name: I am having problems reading the CTF .hc headcoordinates file - link: /faq/i_am_having_problems_reading_the_ctf_.hc_headcoordinates_file - -- name: In what way can frequency domain data be represented in FieldTrip? - link: /faq/in_what_way_can_frequency_domain_data_be_represented_in_fieldtrip - -- name: MATLAB does not see the functions in the "private" directory - link: /faq/matlab_does_not_see_the_functions_in_the_private_directory - -- name: Should I use a Polhemus or a Structure Sensor to record electrode positions? - link: /faq/structuresensor - -- name: What does a typical call to a FieldTrip function look like? - link: /faq/what_does_a_typical_call_to_a_fieldtrip_function_look_like - - name: What kind of filters can I apply to my data? link: /faq/what_kind_of_filters_can_i_apply_to_my_data -- name: Why are so many of the interesting functions in the private directories? - link: /faq/why_are_so_many_of_the_interesting_functions_in_the_private_directories - - name: Why does my TFR look strange (part I, demeaning)? link: /faq/why_does_my_tfr_look_strange @@ -130,84 +43,21 @@ - name: Why is there a residual 50Hz line-noise component after applying a DFT filter? link: /faq/why_is_there_a_residual_50hz_line-noise_component_after_applying_a_dft_filter -- name: Getting started with CTF data - link: /getting_started/ctf - -- name: Template 3-D electrode sets - link: /template/electrode - -- name: Template 3-D gradiometer descriptions - link: /template/gradiometer - - name: Introduction on dealing with artifacts link: /tutorial/artifacts - name: Automatic artifact rejection link: /tutorial/automatic_artifact_rejection -- name: Analysis of corticomuscular coherence - link: /tutorial/coherence - -- name: Analysis of sensor- and source-level connectivity - link: /tutorial/connectivity - -- name: Extended analysis of sensor- and source-level connectivity - link: /tutorial/connectivityextended - -- name: Localizing electrodes using a 3D-scanner - link: /tutorial/electrode - - name: Analysis of human ECoG and sEEG recordings link: /tutorial/human_ecog - name: Cleaning artifacts using ICA link: /tutorial/ica_artifact_cleaning -- name: Whole brain connectivity and network analysis - link: /tutorial/networkanalysis - -- name: Whole brain connectivity and network analysis - link: /tutorial/networkanalysis_eeg - -- name: Whole brain connectivity and network analysis - link: /tutorial/networkanalysis_old - -- name: Preprocessing of EEG data and computing ERPs - link: /tutorial/preprocessing_erp - -- name: Extracting the brain state and events from continuous sleep EEG - link: /tutorial/sleep - - name: Visual or manual artifact rejection link: /tutorial/visual_artifact_rejection -- name: Simulating and estimating, what about model (mis)match? - link: /workshop/chieti2015/simulation - -- name: FieldTrip connectivity demo - link: /workshop/meg-uk-2015/fieldtrip-connectivity-demo - -- name: PracticalMEEG workshop in Aix-en-Provence - link: /workshop/practicalmeeg2022 - -- name: Multimodal faces dataset - link: /workshop/practicalmeeg2022/dataset - -- name: Creation of headmodels and sourcemodels for source reconstruction - link: /workshop/practicalmeeg2022/handson_anatomy - - name: Dealing with artifacts link: /workshop/practicalmeeg2022/handson_artifacts -- name: Group-level statistics with parametric and non-parametric methods - link: /workshop/practicalmeeg2022/handson_groupanalysis - -- name: Preprocessing raw data and computing ERPs/ERFs - link: /workshop/practicalmeeg2022/handson_raw2erp - -- name: Time-frequency analysis using Hanning window, multitapers and wavelets - link: /workshop/practicalmeeg2022/handson_sensoranalysis - -- name: Reconstructing source activity using beamformers - link: /workshop/practicalmeeg2022/handson_sourceanalysis - diff --git a/_data/tag/data.yml b/_data/tag/data.yml index e5b1638c6..b3e3990e2 100644 --- a/_data/tag/data.yml +++ b/_data/tag/data.yml @@ -1,195 +1,6 @@ -- name: MEG dataformats - link: /dataformat/meg - -- name: Spike and LFP dataformats - link: /dataformat/spike - -- name: Example analysis pipeline for Biosemi data - link: /example/biosemi - -- name: Can I create an artificial CTF dataset using MATLAB? - link: /example/writing_simulated_data_to_a_ctf_dataset - -- name: How can I append the files of two separate recordings? - link: /faq/append_files - -- name: How can I share my MEG data? - link: /faq/data_sharing - -- name: What dataformats are supported? - link: /faq/dataformat - -- name: Which datasets are used in the documentation and where are they used? - link: /faq/datasets - -- name: How are the various MATLAB data structures defined? - link: /faq/how_are_the_various_data_structures_defined - -- name: How can I convert an anatomical MRI from DICOM into CTF format? - link: /faq/how_can_i_convert_an_anatomical_mri_from_dicom_into_ctf_format - -- name: How can I convert one dataformat into an other? - link: /faq/how_can_i_convert_one_dataformat_into_an_other - -- name: How can I extend the reading functions with a new dataformat? - link: /faq/how_can_i_extend_the_reading_functions_with_a_new_dataformat - -- name: How can I import my own data format? - link: /faq/how_can_i_import_my_own_dataformat - -- name: How can I merge two datasets that were acquired simultaneously with different amplifiers? - link: /faq/how_can_i_merge_two_datasets_that_were_acquired_simultaneously_with_different_amplifiers - -- name: How can I use the databrowser? - link: /faq/how_can_i_use_the_databrowser - -- name: How is anatomical, functional or statistical "volume data" described? - link: /faq/how_is_anatomical_functional_or_statistical_volume_data_described - -- name: How is the segmentation defined? - link: /faq/how_is_the_segmentation_defined - -- name: I have problems reading in neuroscan .cnt files. How can I fix this? - link: /faq/i_have_problems_reading_in_neuroscan_.cnt_files._how_can_i_fix_this - - name: I used ICA on my MEG data from before 2012 and now FieldTrip crashes, why is that? link: /faq/i_used_ica_on_my_meg_data_from_before_2012_and_now_fieldtrip_crashes_why_is_that -- name: Where can I find open access MEG/EEG data? - link: /faq/open_data - -- name: Reading is slow, can I write my raw data to a more efficient file format? - link: /faq/reading_is_slow_can_i_write_my_raw_data_to_a_more_efficient_file_format - - name: The databrowser crashes and destroys the whole MATLAB session, how can I resolve this? link: /faq/the_databrowser_crashes_and_destroys_the_whole_matlab_session_how_can_i_resolve_this -- name: What does a typical call to a FieldTrip function look like? - link: /faq/what_does_a_typical_call_to_a_fieldtrip_function_look_like - -- name: Getting started with ASA and EEProbe - link: /getting_started/antneuro - -- name: Getting started with AnyWave - link: /getting_started/anywave - -- name: Getting started with Artinis NIRS data - link: /getting_started/artinis - -- name: Getting started with audio data - link: /getting_started/audio - -- name: Getting started with ABM's B-Alert EEG data - link: /getting_started/b_alert - -- name: Getting started with BabySQUID data - link: /getting_started/babysquid - -- name: Getting started with BESA data - link: /getting_started/besa - -- name: Getting started with BIDS - link: /getting_started/bids - -- name: Getting started with BioImage Suite - link: /getting_started/bioimage - -- name: Getting started with Biosemi BDF data - link: /getting_started/biosemi - -- name: Getting started with Blackrock data - link: /getting_started/blackrock - -- name: Getting started with BrainVision Analyzer and Easycap - link: /getting_started/brainvision - -- name: Getting started with BTi/4D data - link: /getting_started/bti - -- name: Getting started with Cerca OPM data - link: /getting_started/cerca - -- name: Getting started with CTF data - link: /getting_started/ctf - -- name: Getting started with Cyberkinetics data - link: /getting_started/cyberkinetics - -- name: Getting started with EDF (European Data Format) data - link: /getting_started/edf - -- name: Getting started with EEGLAB - link: /getting_started/eeglab - -- name: Getting started with EGI/Philips/Magstim data - link: /getting_started/egi - -- name: Getting started with SR-Research EyeLink eye-tracker data - link: /getting_started/eyelink - -- name: Getting started with FieldLine OPM data - link: /getting_started/fieldline - -- name: Getting started with fMRI timeseries data - link: /getting_started/fmri - -- name: Getting started with Hitachi NIRS data - link: /getting_started/hitachi - -- name: Getting started with Homer - link: /getting_started/homer - -- name: Getting started with LORETA - link: /getting_started/loreta - -- name: Getting started with MNE(-python) - link: /getting_started/mne - -- name: Getting started with Neuralynx data - link: /getting_started/neuralynx - -- name: Getting started with Neuralynx data recorded at the Donders Institute - link: /getting_started/neuralynx_fcdc - -- name: Getting started with Neuromag/Elekta/Megin data - link: /getting_started/neuromag - -- name: Getting started with Nicolet data - link: /getting_started/nicolet - -- name: Getting started with NIRx NIRS data - link: /getting_started/nirx - -- name: Getting started with Neurodata Without Borders (NWB) data - link: /getting_started/nwb - -- name: Getting started with OPM data recorded at the FIL - link: /getting_started/opm_fil - -- name: Getting started with Plexon data - link: /getting_started/plexon - -- name: Getting started with Ricoh data - link: /getting_started/ricoh - -- name: Getting started with Shimadzu NIRS data - link: /getting_started/shimadzu - -- name: Getting started with SNIRF data - link: /getting_started/snirf - -- name: Getting started with TMSi data - link: /getting_started/tmsi - -- name: Getting started with video data - link: /getting_started/video - -- name: Getting started with XSens motion capture data - link: /getting_started/xsens - -- name: Getting started with Yokogawa data - link: /getting_started/yokogawa - -- name: Importing your data - link: /reading_data - diff --git a/_data/tag/eeg.yml b/_data/tag/eeg.yml index e2327dc0f..f2b2b01ac 100644 --- a/_data/tag/eeg.yml +++ b/_data/tag/eeg.yml @@ -82,9 +82,6 @@ - name: Is it important to have accurate measurements of electrode locations for EEG source reconstruction? link: /faq/is_it_important_to_have_accurate_measurements_of_electrode_locations_for_eeg_source_reconstruction -- name: Why is FieldTrip developed separately from EEGLAB? - link: /faq/why_is_fieldtrip_developed_separately_from_eeglab - - name: Why should I use an average reference for EEG source reconstruction? link: /faq/why_should_i_use_an_average_reference_for_eeg_source_reconstruction @@ -196,9 +193,6 @@ - name: Beamforming evoked fields and potentials in combined MEG/EEG data link: /workshop/aarhus/beamformingerf -- name: FieldTrip tutorial at CuttingEEG 2021 in Aix-en-Provence - link: /workshop/cuttingeeg2021 - - name: Convert the EEG language dataset for sharing in BIDS link: /workshop/cuttingeeg2021/bids_language @@ -262,27 +256,3 @@ - name: Time-frequency analysis of EEG data link: /workshop/oslo2019/timefrequency -- name: PracticalMEEG workshop in Aix-en-Provence - link: /workshop/practicalmeeg2022 - -- name: Multimodal faces dataset - link: /workshop/practicalmeeg2022/dataset - -- name: Creation of headmodels and sourcemodels for source reconstruction - link: /workshop/practicalmeeg2022/handson_anatomy - -- name: Dealing with artifacts - link: /workshop/practicalmeeg2022/handson_artifacts - -- name: Group-level statistics with parametric and non-parametric methods - link: /workshop/practicalmeeg2022/handson_groupanalysis - -- name: Preprocessing raw data and computing ERPs/ERFs - link: /workshop/practicalmeeg2022/handson_raw2erp - -- name: Time-frequency analysis using Hanning window, multitapers and wavelets - link: /workshop/practicalmeeg2022/handson_sensoranalysis - -- name: Reconstructing source activity using beamformers - link: /workshop/practicalmeeg2022/handson_sourceanalysis - diff --git a/_data/tag/egi.yml b/_data/tag/egi.yml index 15334ad37..6d4a8a973 100644 --- a/_data/tag/egi.yml +++ b/_data/tag/egi.yml @@ -4,6 +4,3 @@ - name: Getting started with EGI/Philips/Magstim data link: /getting_started/egi -- name: Getting started with Neuromag/Elekta/Megin data - link: /getting_started/neuromag - diff --git a/_data/tag/fem.yml b/_data/tag/fem.yml index d868c1fd9..54eb4486c 100644 --- a/_data/tag/fem.yml +++ b/_data/tag/fem.yml @@ -1,6 +1,3 @@ - name: Compute EEG leadfields using a FEM headmodel link: /example/fem -- name: Workshop on the ECoG forward solution using FEMfuns in FieldTrip at the Donders - link: /workshop/femfuns2022 - diff --git a/_data/tag/fil.yml b/_data/tag/fil.yml index efb3bfede..358208a31 100644 --- a/_data/tag/fil.yml +++ b/_data/tag/fil.yml @@ -1,24 +1,3 @@ -- name: Reading and writing of EEG/MEG time series data - link: /development/module/fileio - -- name: Determine the filter characteristics - link: /example/determine_the_filter_characteristics - -- name: How can I interpret the different types of padding in FieldTrip? - link: /faq/how_can_i_interpret_the_different_types_of_padding_that_i_find_when_dealing_with_artifacts - -- name: How does the filter padding in preprocessing work? - link: /faq/how_does_the_filter_padding_in_preprocessing_work - -- name: What kind of filters can I apply to my data? - link: /faq/what_kind_of_filters_can_i_apply_to_my_data - -- name: Why does my TFR look strange (part II, detrending)? - link: /faq/why_does_my_tfr_look_strange_part_ii - -- name: Why is there a residual 50Hz line-noise component after applying a DFT filter? - link: /faq/why_is_there_a_residual_50hz_line-noise_component_after_applying_a_dft_filter - - name: Getting started with OPM data recorded at the FIL link: /getting_started/opm_fil diff --git a/_data/tag/freq.yml b/_data/tag/freq.yml index 0d7d93e87..4ba4e3739 100644 --- a/_data/tag/freq.yml +++ b/_data/tag/freq.yml @@ -124,15 +124,9 @@ - name: Simulating and estimating, what about model (mis)match? link: /workshop/chieti2015/simulation -- name: Time-frequency analysis of combined MEG/EEG data - link: /workshop/natmeg2014/timefrequency - - name: Time-frequency analysis using Hanning window, multitapers and wavelets link: /workshop/ni2_timefrequencyanalysis -- name: Time-frequency analysis of EEG data - link: /workshop/oslo2019/timefrequency - - name: Reading in data and performing sensor-level ERF and TFR analyses link: /workshop/oxford2019/sensor_analysis_plusminus diff --git a/_data/tag/head.yml b/_data/tag/head.yml index ff682e2e7..8ea6feed6 100644 --- a/_data/tag/head.yml +++ b/_data/tag/head.yml @@ -1,114 +1,3 @@ -- name: Combined EEG and MEG source reconstruction - link: /example/combined_eeg_and_meg_source_reconstruction - -- name: Compute forward simulated data using ft_dipolesimulation - link: /example/compute_forward_simulated_data - -- name: Compute forward simulated data with the low-level ft_compute_leadfield - link: /example/compute_leadfield - -- name: Align EEG electrode positions to BEM headmodel - link: /example/electrodes2bem - -- name: Compute EEG leadfields using a FEM headmodel - link: /example/fem - -- name: Make leadfields using different headmodels - link: /example/make_leadfields_using_different_headmodels - -- name: Create MNI-aligned grids in individual head-space - link: /example/sourcemodel_aligned2mni - -- name: Testing BEM created EEG lead fields - link: /example/testing_bem_created_leadfields - -- name: Can I do combined EEG and MEG source reconstruction? - link: /faq/can_i_do_combined_eeg_and_meg_source_reconstruction - -- name: Can I restrict the source reconstruction to the grey matter? - link: /faq/can_i_restrict_the_source_reconstruction_to_the_grey_matter - -- name: How are the different head and MRI coordinate systems defined? - link: /faq/coordsys - -- name: How can I check whether the grid that I have is aligned to the segmented volume and to the sensor gradiometer? - link: /faq/how_can_i_check_whether_the_grid_that_i_have_is_aligned_to_the_segmented_volume_and_to_the_sensor_gradiometer - -- name: How can I fine-tune my BEM volume conduction model? - link: /faq/how_can_i_fine-tune_my_bem_volume_conduction_model - -- name: How can I visualize a localspheres volume conductor model? - link: /faq/how_can_i_visualize_a_localspheres_volume_conductor_model - -- name: How can I visualize the different geometrical objects that are needed for forward and inverse computations? - link: /faq/how_can_i_visualize_the_different_geometrical_objects_that_are_needed_for_forward_and_inverse_computations - - name: How can I visualize the neuromag head position indicator coils? link: /faq/how_can_i_visualize_the_neuromag_head_position_indicator_coils -- name: How do I install the OpenMEEG binaries - link: /faq/how_do_i_install_the_openmeeg_binaries - -- name: How is the segmentation defined? - link: /faq/how_is_the_segmentation_defined - -- name: How to coregister an anatomical MRI with the gradiometer or electrode positions? - link: /faq/how_to_coregister_an_anatomical_mri_with_the_gradiometer_or_electrode_positions - -- name: What is the conductivity of the brain, CSF, skull and skin tissue? - link: /faq/what_is_the_conductivity_of_the_brain_csf_skull_and_skin_tissue - -- name: What kind of volume conduction models of the head (head models) are implemented? - link: /faq/what_kind_of_volume_conduction_models_are_implemented - -- name: Where can I find the dipoli command-line executable? - link: /faq/where_can_i_find_the_dipoli_command-line_executable - -- name: Why does my EEG headmodel look funny? - link: /faq/why_does_my_eegheadmodel_look_funny - -- name: Getting started with MeshLab - link: /getting_started/meshlab - -- name: Getting started with ParaView - link: /getting_started/paraview - -- name: Getting started with Seg3D - link: /getting_started/seg3d - -- name: Getting started with SimNIBS - link: /getting_started/simnibs - -- name: Reference documentation - link: /reference - -- name: References to implemented methods - link: /references_to_implemented_methods - -- name: Template head models for EEG volume conduction modeling - link: /template/headmodel - -- name: Localizing oscillatory sources using beamformer techniques - link: /tutorial/beamformer - -- name: Creating a BEM volume conduction model of the head for source reconstruction of EEG data - link: /tutorial/headmodel_eeg_bem - -- name: Creating a FEM volume conduction model of the head for source reconstruction of EEG data - link: /tutorial/headmodel_eeg_fem - -- name: Creating a volume conduction model of the head for source reconstruction of MEG data - link: /tutorial/headmodel_meg - -- name: Source reconstruction of event-related fields using minimum-norm estimation - link: /tutorial/minimumnormestimate - -- name: Forward modeling for EEG source reconstruction - link: /workshop/oslo2019/forward_modeling - -- name: Creation of headmodels and sourcemodels for source reconstruction - link: /workshop/paris2019/handson_anatomy - -- name: Creation of headmodels and sourcemodels for source reconstruction - link: /workshop/practicalmeeg2022/handson_anatomy - diff --git a/_data/tag/ica.yml b/_data/tag/ica.yml index c12d8629d..5b2178830 100644 --- a/_data/tag/ica.yml +++ b/_data/tag/ica.yml @@ -16,36 +16,9 @@ - name: The databrowser crashes and destroys the whole MATLAB session, how can I resolve this? link: /faq/the_databrowser_crashes_and_destroys_the_whole_matlab_session_how_can_i_resolve_this -- name: What is the plotting convention for anatomical MRIs? - link: /faq/what_is_the_plotting_convention_for_anatomical_mris - -- name: Why does my anatomical MRI show upside-down when plotting it with ft_sourceplot? - link: /faq/why_does_my_anatomical_mri_show_upside-down_when_plotting_it_with_ft_sourceplot - - name: Why does my ICA output contain complex numbers? link: /faq/why_does_my_ica_output_contain_complex_numbers -- name: PracticalMEEG workshop in Aix-en-Provence - link: /workshop/practicalmeeg2022 - -- name: Multimodal faces dataset - link: /workshop/practicalmeeg2022/dataset - -- name: Creation of headmodels and sourcemodels for source reconstruction - link: /workshop/practicalmeeg2022/handson_anatomy - - name: Dealing with artifacts link: /workshop/practicalmeeg2022/handson_artifacts -- name: Group-level statistics with parametric and non-parametric methods - link: /workshop/practicalmeeg2022/handson_groupanalysis - -- name: Preprocessing raw data and computing ERPs/ERFs - link: /workshop/practicalmeeg2022/handson_raw2erp - -- name: Time-frequency analysis using Hanning window, multitapers and wavelets - link: /workshop/practicalmeeg2022/handson_sensoranalysis - -- name: Reconstructing source activity using beamformers - link: /workshop/practicalmeeg2022/handson_sourceanalysis - diff --git a/_data/tag/mri.yml b/_data/tag/mri.yml index e3befaaf6..f038017d1 100644 --- a/_data/tag/mri.yml +++ b/_data/tag/mri.yml @@ -61,9 +61,6 @@ - name: Localizing oscillatory sources using beamformer techniques link: /tutorial/beamformer -- name: Virtual channel analysis of epilepsy MEG data - link: /tutorial/epilepsy - - name: Creating a BEM volume conduction model of the head for source reconstruction of EEG data link: /tutorial/headmodel_eeg_bem diff --git a/_data/tag/opm.yml b/_data/tag/opm.yml index 212175418..654c7cc44 100644 --- a/_data/tag/opm.yml +++ b/_data/tag/opm.yml @@ -1,126 +1,6 @@ -- name: Development - link: /development - -- name: Toolbox architecture and organization of the source code - link: /development/architecture - -- name: Contribute - link: /development/contribute - -- name: Accessing the FieldTrip source code through CVS - link: /development/cvs - -- name: Data structures used by FieldTrip - link: /development/datastructure - -- name: Accessing the FieldTrip source code through Git - link: /development/git - -- name: Code guidelines - link: /development/guideline/code - -- name: Communication guidelines - link: /development/guideline/communication - -- name: Documentation guidelines this is the title, it should also be the first top-level heading - link: /development/guideline/documentation - -- name: Template guidelines - link: /development/guideline/templates - -- name: Website syntax and formatting Website syntax and formatting New page title - link: /development/guideline/website - -- name: Reporting issues - link: /development/issues - -- name: Meetings - link: /development/meeting - -- name: Connectivity estimates for EEG/MEG time series data - link: /development/module/connectivity - -- name: Reading and writing of EEG/MEG time series data - link: /development/module/fileio - -- name: Forward computation of EEG/MEG source models - link: /development/module/forward - -- name: Inverse source parameter estimates from EEG/MEG data - link: /development/module/inverse - -- name: Plotting of channel-level, source-level and other geometrical data related to EEG/MEG - link: /development/module/plotting - -- name: Preprocessing of EEG/MEG time series data - link: /development/module/preproc - -- name: Distributed computing using a Linux compute cluster - link: /development/module/qsub - -- name: Spectral estimation of of EEG/MEG time series data - link: /development/module/specest - -- name: Project overview - link: /development/project - -- name: FieldTrip buffer C implementation - link: /development/realtime/buffer_c - -- name: FieldTrip buffer C++ implementation - link: /development/realtime/buffer_cpp - -- name: FieldTrip buffer Java interface - link: /development/realtime/buffer_java - -- name: FieldTrip buffer MATLAB interface - link: /development/realtime/buffer_matlab - -- name: FieldTrip buffer Python interface - link: /development/realtime/buffer_python - -- name: Suggested improvements for compatibility across versions - link: /development/realtime/draft_compatability - -- name: Suggested improvements for handling header and chunks - link: /development/realtime/draft_header_chunks - -- name: Suggested changes to the reference implementation - link: /development/realtime/draft_implementation - -- name: Suggested changes to the network protocol - link: /development/realtime/draft_network - -- name: Specific software implementations for realtime EEG/MEG/fMRI/NIRS - link: /development/realtime/implementation - -- name: FieldTrip buffer reference implementation - link: /development/realtime/reference_implementation - -- name: Scratchpad for the realtime buffer interface - link: /development/realtime/scratchpad - -- name: Release and quality control - link: /development/releasing - -- name: Accessing the FieldTrip source code through SVN - link: /development/svn - -- name: Testing - link: /development/testing - - name: Which datasets are used in the documentation and where are they used? link: /faq/datasets -- name: How can I keep track of changes to the code? - link: /faq/how_can_i_keep_track_of_the_changes_to_the_code - -- name: How should I share example data with the email list or developers? - link: /faq/how_should_i_send_example_data_to_the_developers - -- name: Why was FieldTrip maintained in SVN and not in Git? - link: /faq/why_is_fieldtrip_maintained_in_svn_and_not_in_git - - name: Getting started with Cerca OPM data link: /getting_started/cerca diff --git a/_data/tag/preproc.yml b/_data/tag/preproc.yml index 18c0794dc..3e3e47e7d 100644 --- a/_data/tag/preproc.yml +++ b/_data/tag/preproc.yml @@ -1,162 +1,3 @@ - name: Preprocessing of EEG/MEG time series data link: /development/module/preproc -- name: Detect the muscle activity in an EMG channel and use that as trial definition - link: /example/detect_the_muscle_activity_in_an_emg_channel_and_use_that_as_trial_definition - -- name: Determine the filter characteristics - link: /example/determine_the_filter_characteristics - -- name: Fixing a missing channel - link: /example/fixing_a_missing_sensor - -- name: Getting started with reading raw EEG or MEG data - link: /example/getting_started_with_reading_raw_eeg_or_meg_data - -- name: Independent component analysis (ICA) to remove ECG artifacts - link: /example/ica_ecg - -- name: Independent component analysis (ICA) to remove EOG artifacts - link: /example/ica_eog - -- name: Making your own trialfun for conditional trial definition - link: /example/making_your_own_trialfun_for_conditional_trial_definition - -- name: Combine MEG with Eyelink eyetracker data - link: /example/meg_eyelink - -- name: Re-reference EEG and iEEG data - link: /example/rereference - -- name: Use denoising source separation (DSS) to remove ECG artifacts - link: /example/use_denoising_source_separation_dss_to_remove_ecg_artifacts - -- name: How can I append the files of two separate recordings? - link: /faq/append_files - -- name: What dataformats are supported? - link: /faq/dataformat - -- name: How can I deal with a discontinuous Neuralynx LFP recording? - link: /faq/discontinuous_neuralynx - -- name: How can I consistently represent artifacts in my data? - link: /faq/how_can_i_consistently_represent_artifacts_in_my_data - -- name: How can I convert one dataformat into an other? - link: /faq/how_can_i_convert_one_dataformat_into_an_other - -- name: How can I extend the reading functions with a new dataformat? - link: /faq/how_can_i_extend_the_reading_functions_with_a_new_dataformat - -- name: How can I find out what eventvalues and eventtypes there are in my data? - link: /faq/how_can_i_find_out_what_eventvalues_and_eventtypes_there_are_in_my_data - -- name: How can I import my own data format? - link: /faq/how_can_i_import_my_own_dataformat - -- name: How can I interpret the different types of padding in FieldTrip? - link: /faq/how_can_i_interpret_the_different_types_of_padding_that_i_find_when_dealing_with_artifacts - -- name: How can I merge two datasets that were acquired simultaneously with different amplifiers? - link: /faq/how_can_i_merge_two_datasets_that_were_acquired_simultaneously_with_different_amplifiers - -- name: How can I preprocess a dataset that is too large to fit into memory? - link: /faq/how_can_i_preprocess_a_dataset_that_is_too_large_to_fit_into_memory - -- name: How can I process continuous data without triggers? - link: /faq/how_can_i_process_continuous_data_without_triggers - -- name: How can I read all channels from an EDF file that contains multiple sampling rates? - link: /faq/how_can_i_read_all_channels_from_an_edf_file_that_contains_multiple_sampling_rates - -- name: How can I read corrupted (unsaved) CTF data? - link: /faq/how_can_i_read_corrupted_unsaved_ctf_data - -- name: How does the filter padding in preprocessing work? - link: /faq/how_does_the_filter_padding_in_preprocessing_work - -- name: I have problems reading in neuroscan .cnt files. How can I fix this? - link: /faq/i_have_problems_reading_in_neuroscan_.cnt_files._how_can_i_fix_this - -- name: Reading is slow, can I write my raw data to a more efficient file format? - link: /faq/reading_is_slow_can_i_write_my_raw_data_to_a_more_efficient_file_format - -- name: Do I need to resample my data, and if so, how is this to be done? - link: /faq/resampling_lowpassfilter - -- name: How can I check or decipher the sequence of triggers in my data? - link: /faq/triggers - -- name: What is the relation between "events" (such as triggers) and "trials"? - link: /faq/what_is_the_relation_between_events_such_as_triggers_and_trials - -- name: What kind of filters can I apply to my data? - link: /faq/what_kind_of_filters_can_i_apply_to_my_data - -- name: Why am I not getting integer frequencies? - link: /faq/why_am_i_not_getting_exact_integer_frequencies - -- name: Why does my TFR look strange (part I, demeaning)? - link: /faq/why_does_my_tfr_look_strange - -- name: Why does my TFR look strange (part II, detrending)? - link: /faq/why_does_my_tfr_look_strange_part_ii - -- name: Why is there a residual 50Hz line-noise component after applying a DFT filter? - link: /faq/why_is_there_a_residual_50hz_line-noise_component_after_applying_a_dft_filter - -- name: Introduction on dealing with artifacts - link: /tutorial/artifacts - -- name: Automatic artifact rejection - link: /tutorial/automatic_artifact_rejection - -- name: Preprocessing - Reading continuous EEG and MEG data - link: /tutorial/continuous - -- name: Event-related averaging and MEG planar gradient - link: /tutorial/eventrelatedaveraging - -- name: Cleaning artifacts using ICA - link: /tutorial/ica_artifact_cleaning - -- name: Preprocessing and averaging of multi-channel NIRS data - link: /tutorial/nirs_multichannel - -- name: Preprocessing and averaging of single-channel NIRS data - link: /tutorial/nirs_singlechannel - -- name: Preprocessing - Segmenting and reading trial-based EEG and MEG data - link: /tutorial/preprocessing - -- name: Preprocessing of EEG data and computing ERPs - link: /tutorial/preprocessing_erp - -- name: Sensor-level ERF, TFR and connectivity analyses - link: /tutorial/sensor_analysis - -- name: Dealing with TMS-EEG datasets - link: /tutorial/tms-eeg - -- name: Visual or manual artifact rejection - link: /tutorial/visual_artifact_rejection - -- name: Preprocessing and event-related activity in combined MEG/EEG data - link: /workshop/natmeg2014/preprocessing - -- name: Preprocessing and event-related potentials in EEG data - link: /workshop/oslo2019/introduction - -- name: Reading in data and performing sensor-level ERF and TFR analyses - link: /workshop/oxford2019/sensor_analysis_plusminus - -- name: From raw data to ERP - link: /workshop/paris2019/handson_raw2erp - -- name: Dealing with artifacts - link: /workshop/practicalmeeg2022/handson_artifacts - -- name: Preprocessing raw data and computing ERPs/ERFs - link: /workshop/practicalmeeg2022/handson_raw2erp - diff --git a/_data/tag/seg.yml b/_data/tag/seg.yml index f7fdfc785..dec06fb44 100644 --- a/_data/tag/seg.yml +++ b/_data/tag/seg.yml @@ -1,18 +1,3 @@ - name: How can I check whether the grid that I have is aligned to the segmented volume and to the sensor gradiometer? link: /faq/how_can_i_check_whether_the_grid_that_i_have_is_aligned_to_the_segmented_volume_and_to_the_sensor_gradiometer -- name: How is the segmentation defined? - link: /faq/how_is_the_segmentation_defined - -- name: Getting started with ParaView - link: /getting_started/paraview - -- name: Getting started with Seg3D - link: /getting_started/seg3d - -- name: Getting started with SimNIBS - link: /getting_started/simnibs - -- name: Creating a FEM volume conduction model of the head for source reconstruction of EEG data - link: /tutorial/headmodel_eeg_fem - diff --git a/_data/tag/source.yml b/_data/tag/source.yml index f10bd0cfe..dbde6ab36 100644 --- a/_data/tag/source.yml +++ b/_data/tag/source.yml @@ -91,9 +91,6 @@ - name: Is it important to have accurate measurements of electrode locations for EEG source reconstruction? link: /faq/is_it_important_to_have_accurate_measurements_of_electrode_locations_for_eeg_source_reconstruction -- name: Is it OK for vertices/dipoles to stick out of the volume conductor? - link: /faq/sticking_out - - name: What is the conductivity of the brain, CSF, skull and skin tissue? link: /faq/what_is_the_conductivity_of_the_brain_csf_skull_and_skin_tissue @@ -103,9 +100,6 @@ - name: Where can I find the dipoli command-line executable? link: /faq/where_can_i_find_the_dipoli_command-line_executable -- name: Why is the source model deformed or incorrectly aligned after warping template? - link: /faq/why_is_the_source_model_deformed_or_incorrectly_aligned_after_warping_template - - name: Why is there a rim around the brain for which the source reconstruction is not computed? link: /faq/why_is_there_a_rim_around_the_brain_for_which_the_source_reconstruction_is_not_computed @@ -118,9 +112,6 @@ - name: References to implemented methods link: /references_to_implemented_methods -- name: Template models for source reconstruction - link: /template/sourcemodel - - name: Localizing oscillatory sources using beamformer techniques link: /tutorial/beamformer @@ -154,15 +145,3 @@ - name: Beamforming oscillatory responses in MEG data link: /workshop/oslo2019/beamforming -- name: Creation of headmodels and sourcemodels for source reconstruction - link: /workshop/paris2019/handson_anatomy - -- name: Reconstructing source activity using beamformers - link: /workshop/paris2019/handson_sourceanalysis - -- name: Creation of headmodels and sourcemodels for source reconstruction - link: /workshop/practicalmeeg2022/handson_anatomy - -- name: Reconstructing source activity using beamformers - link: /workshop/practicalmeeg2022/handson_sourceanalysis - diff --git a/_data/tag/surf.yml b/_data/tag/surf.yml index 5c2906da4..7d279e9e7 100644 --- a/_data/tag/surf.yml +++ b/_data/tag/surf.yml @@ -1,6 +1,3 @@ - name: The databrowser crashes and destroys the whole MATLAB session, how can I resolve this? link: /faq/the_databrowser_crashes_and_destroys_the_whole_matlab_session_how_can_i_resolve_this -- name: Analysis of human ECoG and sEEG recordings - link: /tutorial/human_ecog - diff --git a/_data/tag/tms.yml b/_data/tag/tms.yml index 83c67a9b9..99c674ed6 100644 --- a/_data/tag/tms.yml +++ b/_data/tag/tms.yml @@ -1,12 +1,6 @@ -- name: Streaming realtime data from TMSI EEG amplifiers - link: /development/realtime/tmsi - - name: Which datasets are used in the documentation and where are they used? link: /faq/datasets -- name: Getting started with TMSi data - link: /getting_started/tmsi - - name: Dealing with TMS-EEG datasets link: /tutorial/tms-eeg diff --git a/_data/tag/tobi.yml b/_data/tag/tobi.yml index 2704dd875..812931030 100644 --- a/_data/tag/tobi.yml +++ b/_data/tag/tobi.yml @@ -1,6 +1,3 @@ - name: Streaming realtime data from TOBI (Tools for Brain-Computer Interaction) link: /development/realtime/tobi -- name: Converting an example eyetracker dataset for sharing in BIDS - link: /example/bids_eyetracker -