.. _GraphCont:

Graph Cont.
-----------

The graph controller is for controlling the way graphs (matrices) are rendered.  Each graph gets its own controller. You can use the switch button above to switch between them. The graph controller is initialized by the graph of the last selected edge/cell.
 After you have selected an edge, you can launch the :ref:`Graph Controller <VolCont>` with: :ref:`ctrl+s <LC_Ctrl+s>` or :menuselection:`View-->Object Controller`

.. figure:: media/GraphCont.auto.ALL.jpg
   :align: center
   :name: media/GraphCont.auto.ALL.jpg

   :ref:`(link)<media/GraphCont.auto.ALL.jpg>`


   ..




.. _GraphCont->Graph_Dset_Properties:

Properties of graph dset
^^^^^^^^^^^^^^^^^^^^^^^^



.. figure:: media/GraphCont.auto.Graph_Dset_Properties.jpg
   :align: right
   :name: media/GraphCont.auto.Graph_Dset_Properties.jpg

   :ref:`(link)<media/GraphCont.auto.Graph_Dset_Properties.jpg>`
   ..



   .. _GraphCont->Graph_Dset_Properties->more:

:ref:`more<GraphCont->Graph_Dset_Properties->more>`: More info on Graph Dset


   Opens a dialog with detailed information about the object in geek speak.

.. _GraphCont->Xhair_Info:

Crosshair Information
^^^^^^^^^^^^^^^^^^^^^



.. figure:: media/GraphCont.auto.Xhair_Info.jpg
   :align: right
   :name: media/GraphCont.auto.Xhair_Info.jpg

   :ref:`(link)<media/GraphCont.auto.Xhair_Info.jpg>`
   ..



.. only:: html

   .. raw:: html

      <div class="section" id="graphcont-xhair-info-xhr">
      <p><a class="section" href="#graphcont-xhair-info-xhr" title="Xhr widget link"></a> </p></div>

..



   .. _GraphCont->Xhair_Info->Xhr.r00:

:ref:`Xhr<GraphCont->Xhair_Info->Xhr.r00>`: Crosshair coordinates.


   Set/Get crosshair location in mm :term:`RAI` on
   this controller's selected object.
   Entering new coordinates 
   makes the crosshair jump
   to that location (like :ref:`'ctrl+j' <LC_Ctrl+j>`).
   Use :ref:`'alt+l'<LC_Alt+l>` to center the
   cross hair in your viewer.

.. only:: html

   .. raw:: html

      <div class="section" id="graphcont-xhair-info-edge">
      <p><a class="section" href="#graphcont-xhair-info-edge" title="Edge widget link"></a> </p></div>

..



   .. _GraphCont->Xhair_Info->Edge.r00:

:ref:`Edge<GraphCont->Xhair_Info->Edge.r00>`: 1- Edge index, 2- Nodes forming (directed) edge


   1- Edge/Cell Index:  Get/Set index of :term:`edge`/:term:`cell` in focus on this controller's graph. This number is the :term:`1D index` of the edge/cell in the graph/matrix. Consider it the equivalent of a voxel 1D index in a volume, or a node in a surface dataset. 
   Entering a new edge's index will put that edge  in focus and send the crosshair to its center (like :ref:`j<LC_j>`). Use :ref:`alt+l<LC_Alt+l>` to center the cross hair in your viewer.
   
   Note that an edge can be formed by a pair of identical nodes - think matrix diagonal.
   
   2- Nodes Forming Directed Edge/Cell: For a cell, this would its pair of row and column indices into the matrix. For a graph, this would be the indices of the :term:`nodes` forming the directed edge.

.. only:: html

   .. raw:: html

      <div class="section" id="graphcont-xhair-info-node">
      <p><a class="section" href="#graphcont-xhair-info-node" title="Node widget link"></a> </p></div>

..



   .. _GraphCont->Xhair_Info->Node.r00:

:ref:`Node<GraphCont->Xhair_Info->Node.r00>`: Closest Node index


   Index of the node closest to the selection location on the edge's representation.
   
   *NOTE* that a node is also an edge that starts and ends at the samenode. Think diagonal elements of a connectivity matrix.

.. only:: html

   .. raw:: html

      <div class="section" id="graphcont-xhair-info-val">
      <p><a class="section" href="#graphcont-xhair-info-val" title="Val widget link"></a> </p></div>

..



   .. _GraphCont->Xhair_Info->Val.c00:

:ref:`Val<GraphCont->Xhair_Info->Val.c00>`: Data Values at Edge in Focus


   Data values at edge in focus. :term:`Intensity`, :term:`Threshold`, and :term:`Brightness` show the triplets of values  at the selected edge that correspond to the graph/matrix  choices.in :ref:`I<VolCont->Dset_Mapping->I>`, :ref:`T<VolCont->Dset_Mapping->T>`, and :ref:`B<VolCont->Dset_Mapping->B>` selectors.

.. only:: html

   .. raw:: html

      <div class="section" id="graphcont-xhair-info-lbl">
      <p><a class="section" href="#graphcont-xhair-info-lbl" title="Lbl widget link"></a> </p></div>

..



   .. _GraphCont->Xhair_Info->Lbl.r00:

:ref:`Lbl<GraphCont->Xhair_Info->Lbl.r00>`: Label of edge in focus


   Labels from the selected graph dataset
   at the edge in focus.
   If no labels are available, edge color
   is displayed.

.. _GraphCont->GDset_Controls:

Control appearance of 3D graphs and matrices
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^



.. figure:: media/GraphCont.auto.GDset_Controls.jpg
   :align: right
   :name: media/GraphCont.auto.GDset_Controls.jpg

   :ref:`(link)<media/GraphCont.auto.GDset_Controls.jpg>`
   ..



   .. _GraphCont->GDset_Controls->Dim:

:ref:`Dim<GraphCont->GDset_Controls->Dim>`: Dimming factor to apply to colormap or color datasets.


   Dimming factor to apply to colormap
   before mapping the intensity (I) data.
   The colormap, if displayed on the right,
   is not visibly affected by Dim but the
   colors mapped onto the surface, voxel grid, tracts, etc. are.
   For RGB Dsets (e.g. .col files, or tract colors), Dim is
   applied to the RGB colors directly.
   
   Decreasing Dim is useful when the colors are too saturated
   for lighting to reflect the object terrain.
   When in doubt, just press the button and see what happens.

   .. _GraphCont->GDset_Controls->Bundles:

:ref:`Bundles<GraphCont->GDset_Controls->Bundles>`: Show bundles instead of edges if possible.


   Show bundles instead of edges between nodes if 
   the graph dataset contains such information. For
   the moment, only 3dProbTrackID creates such data.
   
   .. figure:: media/Graph3D.jpg
      :align: left
      :name: media/Graph3D.jpg
      :figwidth: 30%
   
      :ref:`Graph shown in 3D. <media/Graph3D.jpg>` Edges represented by straight lines.
   
   .. figure:: media/Graph3D_Bundles.jpg
      :align: right
      :name: media/Graph3D_Bundles.jpg
      :figwidth: 30%
   
      Graph shown in 3D. :ref:`Edges represented by bundles <media/Graph3D_Bundles.jpg>` derived from.
      tractography with 3dTrackID. See :ref:`FATCAT_DEMO` for details.
   
   .. container:: clearer
   
      .. image:: media/blank.jpg
   
      .. Preceding block is a trick to keep upcoming text from wrapping around the figures.
   
   Figures were generated using :ref:`FATCAT_DEMO` output with::
   
      suma -vol mprage+orig. -gdset DTI/o.NETS_AND_000.niml.dset &
   
   
   
   Bundle colors reflect the value of the edge connecting the two nodes
   
   Selection is identical to when edges are represented by straight lines.
   
   

   .. _GraphCont->GDset_Controls->CN:

:ref:`CN<GraphCont->GDset_Controls->CN>`: How to display connection to selected graph node.


   When a node, rather than an edge is :ref:`selected<Selecting_Objects>`, choose how connections to it are displayed.
   
      Edg: Show connections to selected node with edges, either straight lines or with bundles.
   
      Col: Show connections to selected node by changing the colors of the connecting nodes, based on edge value. Edges are not displayed. the idea here is to reduce the clutter of the display, while still allowing you to visualize connection strength to one node at a time.
   
      Rad: Show connections to selected node by changing the  radius of the connecting nodes, based on edge value. Edges are not displayed in this mode also.
   
      CaR: Both Col and Rad
   
      XXX: Do nothing special, keep showing whole graph, even when selecting a graph node.
   
   

   .. _GraphCont->GDset_Controls->Rd:

:ref:`Rd<GraphCont->GDset_Controls->Rd>`: Choose the sizing option for graph nodes.


   Choose the radius sizing for nodes of this graph dataset.
   
      Const: All nodes have a radius of 1 x Gain.
   
      Val: Nodes size equals its dset value x Gain. A node's dsetvalue is that of the edge connecting the node to itself
   
      XXX: Show no balls.
   
   

   .. _GraphCont->GDset_Controls->Rd->Gn:

:ref:`Gn<GraphCont->GDset_Controls->Rd->Gn>`: Gain factor to apply to node radius.


   Gain to apply to node radius.
   This multiplier is always applied to whatever
   radius value the node gets, whether is it constant
   or data derived.
   

   .. _GraphCont->GDset_Controls->Br:

:ref:`Br<GraphCont->GDset_Controls->Br>`: Choose the partition ratio of matrix.


   Choose the partition ratio of the matrix border. This option only applies to the matrix display of the graph.
   
      XX: No partition.
   
      5: Border is 1/5 of cell width.
   
      10: Border is 1/10 of cell width.
   
      20: Border is 1/20 of cell width.
   
      30: Border is 1/30 of cell width.
   
      40: Border is 1/40 of cell width.
   
   

   .. _GraphCont->GDset_Controls->Fo:

:ref:`Fo<GraphCont->GDset_Controls->Fo>`: Choose the font for graph node labels.


   Choose the font size for labels of nodes.
   
      8: 8x13.
   
      9: 9x15.
   
      TR10: Times New Roman 10.
   
      HE10: Helvetica 10.
   
      HE12: Helvetica 12.
   
      HE18: Helvetica 18.
   
      TR24: Times New Roman 24.
   
      XXX: Show no text.
   
   

   .. _GraphCont->GDset_Controls->Cl:

:ref:`Cl<GraphCont->GDset_Controls->Cl>`: Choose the coloring option for graph nodes.


   Choose the colorization method for nodes of this dataset.
   
      White: Alle weiss.
   
      Black: Tutti nero.
   
      Red: Sve crveno.
   
      Green: Killon akhdar.
   
      Blue: Tous bleu.
   
      Yellow: Todos amarillo.
   
      Gray50: Not there yet.
   
      Val: Nodes color is based its dset value and the chosen colormap
   
   

   .. _GraphCont->GDset_Controls->Sh:

:ref:`Sh<GraphCont->GDset_Controls->Sh>`: Choose the shading options for node labels.


   Choose the variants for how labels are handled.
   
      T : Text shown unless more than 50% occluded.
   
      Ts: Foreground text bright, occluded text shaded
   
      B : Text shown with background box unless more than 50% occluded
   
      Bs: Foreground text with background, occluded text shaded
   
      Ta: All text shown, occlusions be damned.
   
      Ba: All text shown with background, damn the torpedoes.
   
   

   .. _GraphCont->GDset_Controls->U:

:ref:`U<GraphCont->GDset_Controls->U>`: Show Unconnected graph nodes.


   Show graph nodes even if unconnected to other nodes.
   

   .. _GraphCont->GDset_Controls->Th:

:ref:`Th<GraphCont->GDset_Controls->Th>`: Choose the thickness option for graph edges.


   Choose the thickness for edges of this graph dataset.
   
      Const: All nodes have a radius of 1 x Gain.
   
      Val: Edge size equals its dset value x Gain
   
   

   .. _GraphCont->GDset_Controls->Th->Gn:

:ref:`Gn<GraphCont->GDset_Controls->Th->Gn>`: Gain factor to apply to edge thickness.


   Gain to apply to edge thickness.
   This multiplier is always applied to whatever
   thickness value the edge gets, whether is it constant
   or data derived.
   

   .. _GraphCont->GDset_Controls->St:

:ref:`St<GraphCont->GDset_Controls->St>`: Choose the stippling option for graph edges.


   Choose the stippling for edges of this graph dataset.
   
      1 :   One pixel/16 off, almost solid
   
      ...
   
      15:   15/16 pixels off, almost invisible
   
      Val: Set stippling based on the dset value
   
      XXX: No stippling, solid line.
   
   

.. _GraphCont->GDset_Mapping:

Control mapping of edge/cell values to color map
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^



.. figure:: media/GraphCont.auto.GDset_Mapping.jpg
   :align: right
   :name: media/GraphCont.auto.GDset_Mapping.jpg

   :ref:`(link)<media/GraphCont.auto.GDset_Mapping.jpg>`
   ..



   .. _GraphCont->GDset_Mapping->IxT:

:ref:`IxT<GraphCont->GDset_Mapping->IxT>`: Set I, T selection linking modes.


   Switch between methods for the automatic linking of I, T selectors.
   
     None: Do nothing.
   
     Same: Set the T selector to match the I selection.
   
     Stat: Switch T selector to match an I selection with  an obvious statistic. Matching is based on labels.
   
   You can set your preference using environment variable
      SUMA_IxT_LinkMode
   

   .. _GraphCont->GDset_Mapping->I:

:ref:`I<GraphCont->GDset_Mapping->I>`: Select Intensity (I) column, aka sub-brick. 


   Use this menu to select which column (:term:`sub-brick`) in the dataset (Dset) should be used for an Intensity (I)measure.
   
   Values in (I) are the ones that get colored by the colormap,however, no coloring is done if the :ref:`'v'<SurfCont->Dset_Mapping->I->v>` button on the right isturned off.
   
   The (I) value for the selected :term:`datum` (n) is shown in the :ref:`'Val'<SurfCont->Xhair_Info->Val.c00>` tableof the :ref:`'Xhair Info' <SurfCont->Xhair_Info>` section on the left.
   The value is also shown in the SUMA viewer
   
   You can use a different type of selector to set (I). A right-click on 'I' opens a list widget, which is better when you have many columns from which to choose.
   
   The style of this selector can also change depending on the numberof sub-bricks (columns) you have in your dataset. If the numberexceeds a threshold specified by the environment variable :ref:`SUMA_ArrowFieldSelectorTrigger<SUMA_ArrowFieldSelectorTrigger>`
   

   .. _GraphCont->GDset_Mapping->I->v:

:ref:`v<GraphCont->GDset_Mapping->I->v>`: View (ON)/Hide graph edge colors


   View (ON)/Hide Dset edge colors

   .. _GraphCont->GDset_Mapping->T:

:ref:`T<GraphCont->GDset_Mapping->T>`: Select Threshold (T) column, aka sub-brick. 


   Use this menu to select which column (:term:`sub-brick`) in the
   dataset (Dset) should be used for a Threshold (T) measure.
   
   T values are the ones used to determine if a :term:`datum` gets colored based on its (I) value.
   
   A :term:`datum` n is not colored if:
   
       T(n)   < Tscale   
   
   or if :ref:`'\|T\|'<SurfCont->Dset_Mapping->abs_T>` option below is turned ON: 
   
     | T(n) | < Tscale .
   
   Thresholding is not applied when the :ref:`'v'<SurfCont->Dset_Mapping->T->v>` button on the right is turned off.
   
   The (T) value for the selected :term:`datum` (n) is shown in the :ref:`'Val'<SurfCont->Xhair_Info->Val.c00>` tableof the :ref:`'Xhair Info' <SurfCont->Xhair_Info>` section on the left.
   The value is also shown in the SUMA viewer
   
   You can use a different type of selector to set (T). A right-click on 'T' opens a list widget, which is better when you have many columns from which to choose.
   
   The style of this selector can also change depending on the number of sub-bricks (columns) you have in your dataset. If the number exceeds a threshold specified by the environment variable :ref:`SUMA_ArrowFieldSelectorTrigger<SUMA_ArrowFieldSelectorTrigger>`
   

   .. _GraphCont->GDset_Mapping->T->v:

:ref:`v<GraphCont->GDset_Mapping->T->v>`: Apply (ON)/Ignore thresholding


   Apply (ON)/Ignore thresholding

   .. _GraphCont->GDset_Mapping->B:

:ref:`B<GraphCont->GDset_Mapping->B>`: Select Brightness (B) column, aka sub-brick. 


   Use this menu to select which column (:term:`sub-brick`) in the dataset (Dset) should be used for color Brightness (B) modulation.
   
   The (B) values are the ones used to control the brightness of a :term:`datum's<datum>` color.
   
   Brightness modulation is controlled by ranges in the 'B' cells of the table below.
   
   Brightness modulation is not applied when the :ref:`'v'<SurfCont->Dset_Mapping->B->v>` button on 
   the right is turned off.
   
   The (B) value for the selected :term:`datum` (n) is shown in the :ref:`'Val'<SurfCont->Xhair_Info->Val.c00>` tableof the :ref:`'Xhair Info' <SurfCont->Xhair_Info>` section on the left.
   The value is also shown in the SUMA viewer
   
   You can use a different type of selector to set (B). A right-click on 'B' opens a list widget, which is better when you have many columns from which to choose.
   
   The style of this selector can also change depending on the numberof sub-bricks (columns) you have in your dataset. If the numberexceeds a threshold specified by the environment variable :ref:`SUMA_ArrowFieldSelectorTrigger<SUMA_ArrowFieldSelectorTrigger>`
   

   .. _GraphCont->GDset_Mapping->B->v:

:ref:`v<GraphCont->GDset_Mapping->B->v>`: View (ON)/Ignore brightness modulation


   View (ON)/Ignore brightness modulation

.. only:: html

   .. raw:: html

      <div class="section" id="graphcont-gdset-mapping-thrval">
      <p><a class="section" href="#graphcont-gdset-mapping-thrval" title="ThrVal widget link"></a> </p></div>

..



   .. _GraphCont->GDset_Mapping->ThrVal[0]:

:ref:`ThrVal[0]<GraphCont->GDset_Mapping->ThrVal[0]>`: Threshold Value (append 'p' to set by p value, '%' to set by percentile)


   Set/Get the threshold value.
   When statistical parameters are set under :ref:`T <VolCont->Dset_Mapping->T>`, you can 
   append a 'p' to set by the p value, as in 0.001p.
   
   For percentile thresholding, append a '%' to the value, such as 25%
   

   .. _GraphCont->GDset_Mapping->Cmap->bar:

:ref:`bar<GraphCont->GDset_Mapping->Cmap->bar>`: Colorbar for 'I' values


   Colorbar used for colorizing values in 'I' sub-brick.
   Colorization depends on the settings under the :ref:`I<SurfCont->Dset_Mapping->I>`, :ref:`Range Setting<SurfCont->Dset_Mapping->SetRangeTable.r01>`, among other things. Threshold settings determine whether or not a certain value will get displayed at all.
   
   Use  *ctrl+h over the colorbar* for help on :ref:`manipulating the displayed map<Colormap_Keyboard_Controls>`.
   

   .. _GraphCont->GDset_Mapping->Cmap->scale:

:ref:`scale<GraphCont->GDset_Mapping->Cmap->scale>`: Set the threshold for 'T' values


   Set threshold value to determine which nodes/voxels/edges will get coloredVoxels for which the value in the 'T' sub-brick is below that of the threshold will not get colored.

   .. _GraphCont->GDset_Mapping->Cmap->pval:

:ref:`pval<GraphCont->GDset_Mapping->Cmap->pval>`: Nominal p-value per node; FDR q-value


   Shows the estimated significance
   (p-value) of the threshold above,
   if possible.
   
      * If not possible, will display as '[N/A]' instead.
   
      * p's that display as 1.2-7 should be interpreted as 1.2 x 10^(-7)
   
      * p-value here is significance PER NODE/VOXEL/etc.
   
   * If FDR curves are pre-computed in the dataset's header, then the False Discovery Rate q-value will also be shown.
   
   * You can add FDR curves to a dataset with '3drefit -addFDR'.
   

   .. _GraphCont->GDset_Mapping->SetRangeTable.c00:

:ref:`SetRangeTable<GraphCont->GDset_Mapping->SetRangeTable.c00>`: Clipping ranges


   Used for setting the clipping ranges. Clipping is only done for 
   color mapping. Actual data 
   values do not change.

   .. _GraphCont->GDset_Mapping->SetRangeTable.r01:

:ref:`SetRangeTable.r01<GraphCont->GDset_Mapping->SetRangeTable.r01>`: Intensity clipping range (append '%' for percentiles, see BHelp)


   Intensity clipping range rules:
   
      Values in the intensity data that are less than Min are colored by the first (bottom) color of the colormap. 
   
      Values larger than Max are mapped to the top color.
   
      Intermediate values are mapped according to the :ref:`'Col'<SurfCont->Dset_Mapping->Col>` menu below.
   
   You can set the range as a percentile of the dataset's values by appending  '%' to the percentile for Min and/or Max such as 5% or 90%. Note that the percentile always gets replaced by the actual value in the dataset.
   
   A left-click on 'I' locks ranges from automatic resetting, and the locked range applies to the current Dset only. A locked range is indicated with the reverse video mode.
   
   A right-click resets values to the default range (usually 2% to 98%) in the dataset.

   .. _GraphCont->GDset_Mapping->SetRangeTable.r02:

:ref:`SetRangeTable.r02<GraphCont->GDset_Mapping->SetRangeTable.r02>`: Brightness modulation clipping range 


   Values in the brightness (B) :ref:`column<SurfCont->Dset_Mapping->B>` are clipped to the Min to Max range in this row before calculating their modulation factor per the values in the next table row.
   
   You can set the range as a percentile of the dataset's values by appending  '%' to the percentile for Min and/or Max such as 8% or 75%. Note that the percentile always gets replaced by the actual value in the dataset.
   
   A left-click locks ranges in this row from automatic resetting, and a locked range is applied to the current Dset only. A locked range is indicated with the reverse video mode.
   
   A right-click resets values to the default range (usually 2% to 98%) for the dataset.

   .. _GraphCont->GDset_Mapping->SetRangeTable.r03:

:ref:`SetRangeTable.r03<GraphCont->GDset_Mapping->SetRangeTable.r03>`: Brightness modulation factor range 


   Brightness modulation factor range.
   Brightness modulation values, after
   clipping per the values in the row above,
   are scaled to fit the range specified
   here.

   .. _GraphCont->GDset_Mapping->Col:

:ref:`Col<GraphCont->GDset_Mapping->Col>`: Switch between color mapping modes.


   Switch between modes for mapping values to the color map.
   
   The bottom color of the map C0 maps to the minimum value in the :ref:`I range<SurfCont->Dset_Mapping->SetRangeTable.r01>` row, and the top color to the maximum value. Colors for values in between the minimum and maximum of :ref:`I range<SurfCont->Dset_Mapping->SetRangeTable.r01>`, the following methods apply
   
   Int: Interpolate linearly between colors in colormap to find color at
   
      icol=((V-Vmin)/Vrange * Ncol) 
   
   NN : Use the nearest color in the colormap. The index into the colormap of Ncol colors is given by 
   
      icol=floor((V-Vmin)/Vrange * Ncol) 
   
   with icol clipped to the range 0 to Ncol-1
   
   Dir: Use intensity values as indices into the colormap. In Dir mode, the intensity  clipping range is of no use.
   
      icol=floor(V) with clipping to the range 0 to Ncol-1

   .. _GraphCont->GDset_Mapping->Cmp:

:ref:`Cmp<GraphCont->GDset_Mapping->Cmp>`: Switch between available color maps. 


   Switch between available color maps.
   If the number of colormaps is too large
   for the menu button, right click over
   the 'Cmp' label and a chooser with a 
   slider bar will appear.
   
   More help is available via
   ctrl+h while mouse is over the
   colormap.

   .. _GraphCont->GDset_Mapping->Cmp->New:

:ref:`New<GraphCont->GDset_Mapping->Cmp->New>`: Load new colormap


   Load new colormap.
   Loaded map will replace a
   pre-existing one with the
   same name.
   
   See ScaleToMap -help for 
   details on the format of 
   colormap file. The formats
   are described in the section
   for the option -cmapfile.
   
   A sample colormap would be::
   
    0 0 1
    1 1 1
    1 0 0
   
   saved into a cmap file called
   cmap_test.1D.cmap
   See also envs :ref:`SUMA_CmapsDir<SUMA_CmapsDir>`, :ref:`SUMA_RetinoAngle_DsetColorMap<SUMA_RetinoAngle_DsetColorMap>` and :ref:`SUMA_VFR_DsetColorMap<SUMA_VFR_DsetColorMap>`

   .. _GraphCont->GDset_Mapping->abs_T:

:ref:`abs_T<GraphCont->GDset_Mapping->abs_T>`: Absolute threshold ON/OFF


   Toggle Absolute thresholding.
   
      OFF: Mask color for :term:`datum` (nodes, edges, voxels, etc.) that have:
   
         T(n) < Tscale
   
      ON:  Mask color for :term:`datum` that have:
   
         | T(n) | < Tscale
   
   where:
   
        Tscale is the value set by the threshold scale.
   
        T(n) is the :term:`datum` value in the selected threshold column (T). This value is seen in the second cell of the 'Value' table on the left side.

   .. _GraphCont->GDset_Mapping->sym_I:

:ref:`sym_I<GraphCont->GDset_Mapping->sym_I>`: Intensity range symmetry about 0 


   Toggle Intensity range symmetry about 0.
   
      ON : Intensity clipping range is forced to go from  -val to val. This allows you to mimic AFNI's ranging mode.
   
     OFF: Intensity clipping range can be set to your liking.

   .. _GraphCont->GDset_Mapping->shw_0:

:ref:`shw_0<GraphCont->GDset_Mapping->shw_0>`: Color masking of nodes with intensity = 0 


   Toggle color masking of nodes with intensity = 0 
   
     ON : 0 intensities are mapped to the colormap as any other values.
   
     OFF: 0 intensities are masked, a la AFNI

.. only:: html

   .. raw:: html

      <div class="section" id="graphcont-gdset-mapping-rangetable">
      <p><a class="section" href="#graphcont-gdset-mapping-rangetable" title="RangeTable widget link"></a> </p></div>

..



   .. _GraphCont->GDset_Mapping->RangeTable.c00:

:ref:`RangeTable<GraphCont->GDset_Mapping->RangeTable.c00>`: Full range of values in Dset


   Full range of values in Dset

   .. _GraphCont->GDset_Mapping->RangeTable.r01:

:ref:`RangeTable.r01<GraphCont->GDset_Mapping->RangeTable.r01>`: Range of values in intensity (I) column


   Range of values in intensity (I) column

   .. _GraphCont->GDset_Mapping->RangeTable.r02:

:ref:`RangeTable.r02<GraphCont->GDset_Mapping->RangeTable.r02>`: Range of values in threshold (T) column


   Range of values in threshold (T) column

   .. _GraphCont->GDset_Mapping->RangeTable.r03:

:ref:`RangeTable.r03<GraphCont->GDset_Mapping->RangeTable.r03>`: Range of values in brightness (B) column


   Range of values in brightness (B) column

   .. _GraphCont->GDset_Mapping->RangeTable.c01:

:ref:`RangeTable.c01<GraphCont->GDset_Mapping->RangeTable.c01>`: Minimum value in Dset column


   Minimum value in Dset column

   .. _GraphCont->GDset_Mapping->RangeTable.c02:

:ref:`RangeTable.c02<GraphCont->GDset_Mapping->RangeTable.c02>`: Edge index at minimum


   Edge index at minimum.
   Right click in cell to
   have crosshair jump to
   edge's index.
   Same as 'ctrl+j' or
   an entry in the 'Edge' cell
   under Xhair Info block.

   .. _GraphCont->GDset_Mapping->RangeTable.c03:

:ref:`RangeTable.c03<GraphCont->GDset_Mapping->RangeTable.c03>`: Maximum value in Dset column


   Maximum value in Dset column

   .. _GraphCont->GDset_Mapping->RangeTable.c04:

:ref:`RangeTable.c04<GraphCont->GDset_Mapping->RangeTable.c04>`: Edge index at maximum


   Edge index at maximum.
   Right click in cell to
   have crosshair jump to
   edge's index.
   Same as 'ctrl+j' or
   an entry in the 'Edge' cell
   under Xhair Info block.