plot_FC

Plot a functional connectivity matrix.

Supports fMRI (functional magnetic resonance imaging)
analysis tasks including reading in 'CIFTI', 'GIFTI' and
'NIFTI' data, temporal filtering, nuisance regression, and
aCompCor (anatomical Components Correction) (Muschelli et al.
(2014) <doi:10.1016/j.neuroimage.2014.03.028>).

Amanda Mejia

fMRItools

Routines for Common fMRI Processing Tasks

Damon Pham

Mark Fiecas

plot_FC function

<dl><dt>FC</dt>
<dd>The functional connectivity matrix, a square numeric matrix with
values between -1 and 1.</dd>
<dt>zlim</dt>
<dd>The minimum and maximum range of the color scale. Default:
<code>c(-1, 1)</code>. If in descending order, the color scale will be reversed.</dd>
<dt>diag_val</dt>
<dd>Set to <code>NA</code> for white, <code>1</code>, or <code>NULL</code>
(default) to not modify the diagonal values in <code>FC</code>.</dd>
<dt>title</dt>
<dd>(Optional) Plot title.</dd>
<dt>cols</dt>
<dd>Character vector of colors for the color scale. Default:
<code>color_palette("Beach")</code>.</dd>
<dt>cleg_ticks_by</dt>
<dd>Spacing between ticks on the color legend. Default:
<code>range(zlim)/2</code>.</dd>
<dt>cleg_digits</dt>
<dd>How many decimal digits for the color legend. Default:
<code>NULL</code> to set automatically.</dd>
<dt>labels</dt>
<dd>A character vector of length <code>length(lines)+1</code>, giving
row/column labels for the submatrices divided by <code>lines</code>. If
<code>NULL</code> (default), do not add labels.</dd>
<dt>lines</dt>
<dd>Add lines to divide the FC matrix into submatrices? Default:
<code>NULL</code> (do not draw lines). Set to <code>"all"</code> to delineate each
individual row and column.</dd>
<dt>lines_col, lines_lwd</dt>
<dd>Color and line width of the <code>lines</code>. Default:
black lines of width <code>1</code>.</dd>
<dt>cex</dt>
<dd>Text size. Default: <code>0.8</code>.</dd></dl>

Arguments

Plot FC — plot_FC

<dl>

<dt>FC</dt>
<dd>The functional connectivity matrix, a square numeric matrix with
values between -1 and 1.</dd>


<dt>zlim</dt>
<dd>The minimum and maximum range of the color scale. Default:
<code>c(-1, 1)</code>. If in descending order, the color scale will be reversed.</dd>


<dt>diag_val</dt>
<dd>Set to <code>NA</code> for white, <code>1</code>, or <code>NULL</code>
(default) to not modify the diagonal values in <code>FC</code>.</dd>


<dt>title</dt>
<dd>(Optional) Plot title.</dd>


<dt>cols</dt>
<dd>Character vector of colors for the color scale. Default:
<code>color_palette("Beach")</code>.</dd>


<dt>cleg_ticks_by</dt>
<dd>Spacing between ticks on the color legend. Default:
<code>range(zlim)/2</code>.</dd>


<dt>cleg_digits</dt>
<dd>How many decimal digits for the color legend. Default:
<code>NULL</code> to set automatically.</dd>


<dt>labels</dt>
<dd>A character vector of length <code>length(lines)+1</code>, giving
row/column labels for the submatrices divided by <code>lines</code>. If
<code>NULL</code> (default), do not add labels.</dd>


<dt>lines</dt>
<dd>Add lines to divide the FC matrix into submatrices? Default:
<code>NULL</code> (do not draw lines). Set to <code>"all"</code> to delineate each
individual row and column.</dd>


<dt>lines_col, lines_lwd</dt>
<dd>Color and line width of the <code>lines</code>. Default:
black lines of width <code>1</code>.</dd>


<dt>cex</dt>
<dd>Text size. Default: <code>0.8</code>.</dd>

</dl>

plot_FC: Plot FC

Description

Usage

Arguments