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reference:ft_databrowser [2018/08/23 14:43]
reference:ft_databrowser [2018/08/23 14:43] (current)
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 +=====  FT_DATABROWSER =====
 +Note that this reference documentation is identical to the help that is displayed in MATLAB when you type "help ft_databrowser"​.
 +  <a href=/​reference/​ft_databrowser><​font color=green>​FT_DATABROWSER</​font></​a>​ can be used for visual inspection of data. Artifacts that were
 +  detected by artifact functions (see FT_ARTIFACT_xxx functions where xxx is the type
 +  of artifact) are marked. Additionally data pieces can be marked and unmarked as
 +  artifact by manual selection. The output cfg contains the updated specification of
 +  the artifacts.
 +  Use as
 +    cfg = ft_databrowser(cfg)
 +    cfg = ft_databrowser(cfg,​ data)
 +  If you only specify the configuration structure, it should contain the name of the
 +  dataset on your hard disk (see below). If you specify input data, it should be a
 +  data structure as obtained from <a href=/​reference/​ft_preprocessing><​font color=green>​FT_PREPROCESSING</​font></​a>​ or from <a href=/​reference/​ft_componentanalysis><​font color=green>​FT_COMPONENTANALYSIS</​font></​a>​.
 +  If you want to browse data that is on disk, you have to specify
 +    cfg.dataset ​                = string with the filename
 +  Instead of specifying the dataset, you can also explicitely specify the name of the
 +  file containing the header information and the name of the file containing the
 +  data, using
 +    cfg.datafile ​               = string with the filename
 +    cfg.headerfile ​             = string with the filename
 +  The following configuration options are supported:
 +    cfg.ylim ​                   = vertical scaling, can be '​maxmin',​ '​maxabs'​ or [ymin ymax] (default = '​maxabs'​)
 +    cfg.zlim ​                   = color scaling to apply to component topographies,​ '​minmax',​ '​maxabs'​ (default = '​maxmin'​)
 +    cfg.blocksize ​              = duration in seconds for cutting the data up
 +    cfg.trl ​                    = structure that defines the data segments of interest, only applicable for trial-based data
 +    cfg.continuous ​             = '​yes'​ or '​no'​ whether the data should be interpreted as continuous or trial-based
 +    cfg.channel ​                = cell-array with channel labels, see <a href=/​reference/​ft_channelselection><​font color=green>​FT_CHANNELSELECTION</​font></​a>​
 +    cfg.channelclamped ​         = cell-array with channel labels, that (when using the '​vertical'​ viewmode) will always be
 +                                  shown at the bottom. This is useful for showing ECG/EOG channels along with the other channels
 +    cfg.plotlabels ​             = '​yes'​ (default), '​no',​ '​some';​ whether to plot channel labels in vertical
 +                                  viewmode ('​some'​ plots one in every ten labels; useful when plotting a
 +                                  large number of channels at a time)
 +    cfg.ploteventlabels ​        = '​type=value',​ '​colorvalue'​ (default = '​type=value'​);​
 +    cfg.plotevents ​             = '​no'​ or '​yes',​ whether to plot event markers. (default is '​yes'​)
 +    cfg.viewmode ​               = string, '​butterfly',​ '​vertical',​ '​component'​ for visualizing ICA/PCA components (default is '​butterfly'​)
 +    cfg.artfctdef.xxx.artifact ​ = Nx2 matrix with artifact segments see FT_ARTIFACT_xxx functions
 +    cfg.selectfeature ​          = string, name of feature to be selected/​added (default = '​visual'​)
 +    cfg.selectmode ​             = '​markartifact',​ '​markpeakevent',​ '​marktroughevent'​ (default = '​markartifact'​)
 +    cfg.colorgroups ​            = '​sequential'​ '​allblack'​ '​labelcharx'​ (x = xth character in label), '​chantype'​ or
 +                                   ​vector with length(data/​hdr.label) defining groups (default = '​sequential'​)
 +    cfg.channelcolormap ​        = COLORMAP (default = customized lines map with 15 colors)
 +    cfg.verticalpadding ​        = number or '​auto',​ padding to be added to top and bottom of plot to avoid channels largely
 +                                  dissappearing when viewmode = '​vertical'/'​component' ​ (default = '​auto'​). The padding is
 +                                  expressed as a proportion of the total height added to the top and bottom. The setting '​auto'​
 +                                  determines the padding depending on the number of channels that are being plotted.
 +    cfg.selfun ​                 = string, name of function that is evaluated using the right-click context menu. The selected
 +                                  data and cfg.selcfg are passed on to this function.
 +    cfg.selcfg ​                 = configuration options for function in cfg.selfun
 +    cfg.seldat ​                 = '​selected'​ or '​all',​ specifies whether only the currently selected or all channels will
 +                                  be passed to the selfun (default = '​selected'​)
 +    cfg.renderer ​               = string, '​opengl',​ '​zbuffer',​ '​painters',​ see MATLAB Figure Properties. If the databrowser
 +                                  crashes, you should try '​painters'​.
 +    cfg.position ​               = location and size of the figure, specified as a vector of the form [left bottom width height].
 +  The following options for the scaling of the EEG, EOG, ECG, EMG and MEG channels is
 +  optional and can be used to bring the absolute numbers of the different channel
 +  types in the same range (e.g. fT and uV). The channel types are determined from the
 +  input data using <a href=/​reference/​ft_channelselection><​font color=green>​FT_CHANNELSELECTION</​font></​a>​.
 +    cfg.eegscale ​               = number, scaling to apply to the EEG channels prior to display
 +    cfg.eogscale ​               = number, scaling to apply to the EOG channels prior to display
 +    cfg.ecgscale ​               = number, scaling to apply to the ECG channels prior to display
 +    cfg.emgscale ​               = number, scaling to apply to the EMG channels prior to display
 +    cfg.megscale ​               = number, scaling to apply to the MEG channels prior to display
 +    cfg.gradscale ​              = number, scaling to apply to the MEG gradiometer channels prior to display (in addition to the cfg.megscale factor)
 +    cfg.magscale ​               = number, scaling to apply to the MEG magnetometer channels prior to display (in addition to the cfg.megscale factor)
 +    cfg.mychanscale ​            = number, scaling to apply to the channels specified in cfg.mychan
 +    cfg.mychan ​                 = Nx1 cell-array with selection of channels
 +    cfg.chanscale ​              = Nx1 vector with scaling factors, one per channel specified in cfg.channel
 +    cfg.compscale ​              = string, '​global'​ or '​local',​ defines whether the colormap for the topographic scaling is
 +                                  applied per topography or on all visualized components (default '​global'​)
 +  You can specify preprocessing options that are to be applied to the  data prior to
 +  display. Most options from <a href=/​reference/​ft_preprocessing><​font color=green>​FT_PREPROCESSING</​font></​a>​ are supported. They should be specified
 +  in the sub-structure cfg.preproc like these examples
 +    cfg.preproc.lpfilter ​       = '​no'​ or '​yes' ​ lowpass filter (default = '​no'​)
 +    cfg.preproc.lpfreq ​         = lowpass ​ frequency in Hz
 +    cfg.preproc.demean ​         = '​no'​ or '​yes',​ whether to apply baseline correction (default = '​no'​)
 +    cfg.preproc.detrend ​        = '​no'​ or '​yes',​ remove linear trend from the data (done per trial) (default = '​no'​)
 +    cfg.preproc.baselinewindow ​ = [begin end] in seconds, the default is the complete trial (default = '​all'​)
 +  In case of component viewmode, a layout is required. If no layout is specified, an
 +  attempt is made to construct one from the sensor definition that is present in the
 +  data or specified in the configuration.
 +    cfg.layout ​                 = filename of the layout, see <a href=/​reference/​ft_prepare_layout><​font color=green>​FT_PREPARE_LAYOUT</​font></​a>​
 +    cfg.elec ​                   = structure with electrode positions, see <a href=/​reference/​ft_datatype_sens><​font color=green>​FT_DATATYPE_SENS</​font></​a>​
 +    cfg.grad ​                   = structure with gradiometer definition, see <a href=/​reference/​ft_datatype_sens><​font color=green>​FT_DATATYPE_SENS</​font></​a>​
 +    cfg.elecfile ​               = name of file containing the electrode positions, see <a href=/​reference/​ft_read_sens><​font color=green>​FT_READ_SENS</​font></​a>​
 +    cfg.gradfile ​               = name of file containing the gradiometer definition, see <a href=/​reference/​ft_read_sens><​font color=green>​FT_READ_SENS</​font></​a>​
 +  The default font size might be too small or too large, depending on the number of
 +  channels. You can use the following options to change the size of text inside the
 +  figure and along the axes.
 +    cfg.fontsize ​               = number, fontsize inside the figure (default = 0.03)
 +    cfg.fontunits ​              = string, can be '​normalized',​ '​points',​ '​pixels',​ '​inches'​ or '​centimeters'​ (default = '​normalized'​)
 +    cfg.axisfontsize ​           = number, fontsize along the axes (default = 10)
 +    cfg.axisfontunits ​          = string, can be '​normalized',​ '​points',​ '​pixels',​ '​inches'​ or '​centimeters'​ (default = '​points'​)
 +    cfg.linewidth ​              = number, width of plotted lines (default = 0.5)
 +  When visually selection data, a right-click will bring up a context-menu containing
 +  functions to be executed on the selected data. You can use your own function using
 +  cfg.selfun and cfg.selcfg. You can use multiple functions by giving the names/cfgs
 +  as a cell-array.
 +  In butterfly and vertical mode, you can use the "​identify"​ button to reveal the name of a
 +  channel. Please be aware that it searches only vertically. This means that it will
 +  return the channel with the amplitude closest to the point you have clicked at the
 +  specific time point. This might be counterintuitive at first.
 +  The "​cfg.artfctdef"​ structure in the output cfg is comparable to the configuration
 +  used by the artifact detection functions like <a href=/​reference/​ft_artifact_zvalue><​font color=green>​FT_ARTIFACT_ZVALUE</​font></​a>​ and in
 +  <a href=/​reference/​ft_rejectartifact><​font color=green>​FT_REJECTARTIFACT</​font></​a>​. It contains for each artifact type an Nx2 matrix in which the
 +  first column corresponds to the begin samples of an artifact period, the second
 +  column contains the end samples of the artifact periods.
 +  Note for debugging: in case the databrowser crashes, use delete(gcf) to kill the
 +  figure.
 +  See also <a href=/​reference/​ft_preprocessing><​font color=green>​FT_PREPROCESSING</​font></​a>,​ <a href=/​reference/​ft_rejectartifact><​font color=green>​FT_REJECTARTIFACT</​font></​a>,​ <a href=/​reference/​ft_artifact_eog><​font color=green>​FT_ARTIFACT_EOG</​font></​a>,​ <a href=/​reference/​ft_artifact_muscle><​font color=green>​FT_ARTIFACT_MUSCLE</​font></​a>,​
 +  <a href=/​reference/​ft_artifact_jump><​font color=green>​FT_ARTIFACT_JUMP</​font></​a>,​ FT_ARTIFACT_MANUAL,​ <a href=/​reference/​ft_artifact_threshold><​font color=green>​FT_ARTIFACT_THRESHOLD</​font></​a>,​ <a href=/​reference/​ft_artifact_clip><​font color=green>​FT_ARTIFACT_CLIP</​font></​a>,​
 +  <a href=/​reference/​ft_artifact_ecg><​font color=green>​FT_ARTIFACT_ECG</​font></​a>,​ <a href=/​reference/​ft_componentanalysis><​font color=green>​FT_COMPONENTANALYSIS</​font></​a>​