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Humble attempt to fix typos by adding codespell action, config etc. #53

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f7e37e2
Add github action to codespell master on push and PRs
yarikoptic Apr 27, 2023
0d83fce
Add rudimentary codespell config
yarikoptic Apr 27, 2023
c2ae67d
ignores
yarikoptic Nov 28, 2023
35bf59a
Consensus typo
yarikoptic Nov 28, 2023
e6d4b99
[DATALAD RUNCMD] sagittal typo
yarikoptic Nov 28, 2023
90d5f99
[DATALAD RUNCMD] boostrap typo
yarikoptic Nov 28, 2023
aa2a34b
[DATALAD RUNCMD] Boostrap typo
yarikoptic Nov 28, 2023
85c1828
[DATALAD RUNCMD] decription typo
yarikoptic Nov 28, 2023
02aa46c
[DATALAD RUNCMD] indepenent typo
yarikoptic Nov 28, 2023
86207f5
Merge branch 'master' into enh-codespell
torwager Sep 13, 2025
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4 changes: 4 additions & 0 deletions .codespellrc
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@@ -0,0 +1,4 @@
[codespell]
skip = .git,*.pdf,*.svg,*.js,_build,*.html,*.rtf,External
#
ignore-words-list = ons,ans,fpr,ttests,myu,whos,ser,htmp,fwe,dout
19 changes: 19 additions & 0 deletions .github/workflows/codespell.yml
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@@ -0,0 +1,19 @@
---
name: Codespell

on:
push:
branches: [master]
pull_request:
branches: [master]

jobs:
codespell:
name: Check for spelling errors
runs-on: ubuntu-latest

steps:
- name: Checkout
uses: actions/checkout@v3
- name: Codespell
uses: codespell-project/actions-codespell@v1
6 changes: 3 additions & 3 deletions CanlabCore/@fmri_data/predict.m
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Expand Up @@ -107,8 +107,8 @@
% total model, between model, within model, intercept (same for all
% models), between eigenvectors, between scores, within
% eigenvectors and within scores. Requires 'subjID' option followed
% by size(obj.dat,2) x 1 vector of block labels.
% Optional: Concensus PCA, {'cpca', 1}. [Default]={'cpca, 0}.
% by size(obj.dat,2) x 1 vector of block labels.
% Optional: Consensus PCA, {'cpca', 1}. [Default]={'cpca', 0}.
% Optional: Dimension selection, {'numcomponents', [bt, wi]}.
% [Default] = {'numcomponents',[Inf,Inf]} (df constrained)
% Note: You probably want to bootstrap this manually if
Expand Down Expand Up @@ -500,7 +500,7 @@
% -added nancorr to ignore nans when calculating correlation
% -added rng 'shuffle' to ensure that bootstrapping will use
% different inital seed. VERY IMPORTANT for aggregating across
% multiple boostrap sessions!
% multiple bootstrap sessions!
%
% 11/28/13: Luke Chang
% -added ability to use hv block cross-validation, which is good
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4 changes: 2 additions & 2 deletions CanlabCore/@fmridisplay/addpoints.m
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Expand Up @@ -11,7 +11,7 @@
% - enter xyz as n x 3 list of coordinates in mm to plot (world space)
% - Points or text labels or both
% - Flexible slice spacing, colors, marker sizes/styles, axis layout (one row/standard square)
% - axial, saggital, or coronal orientation handled automatically
% - axial, sagittal, or coronal orientation handled automatically
% - Multiple different sets of points can be plotted in different colors/text labels
%
% :Optional Inputs:
Expand Down Expand Up @@ -178,7 +178,7 @@
case 'axial'
whcol = 3;

case {'sagg', 'sagittal', 'saggital'}
case {'sagg', 'sagittal', 'sagittal'}
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@yarikoptic yarikoptic Sep 13, 2025

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@jc2 , following your comment in the main thread (sorry -- missed), you want to expand this to contain all of them and then we need to ignore the line to not fix them up, so smth like

Suggested change
case {'sagg', 'sagittal', 'sagittal'}
case {'sagg', 'sagittal', 'sagittal', 'saggital'} # codespell:ignore

?

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@jcf2 jcf2 Sep 15, 2025

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I'm not sure exactly what I meant there, but looking at that case, 'sagg' and 'saggital' are misspellings, though possibly intentionally handled in this case statement? So this may be less a "typo" issue than a design one.

The original has case {'sagg', 'sagittal', 'sagittal'}. That handles both correct and misspelled sagittal, but only misspelled sag. So I think the correct line might be

case {'sag', 'sagg', 'sagittal', 'saggital'}  # codespell:ignore

IF the intention is indeed to gently support misspelled versions?...

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@yarikoptic yarikoptic Sep 15, 2025

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FWIW git history is not useful here 
❯ git blame CanlabCore/@fmridisplay/addpoints.m | grep case.*sagg
d7bb2736 fmridisplay/@fmridisplay/addpoints.m (Zeb Delk  2014-08-12 15:45:56 -0600 181)             case {'sagg', 'sagittal', 'saggital'}
❯ git show d7bb2736 | head -n 20
commit d7bb27368a04c20a3bb62672ed5854bb698c4aab
Author: Zeb Delk <[email protected]>
Date:   Tue Aug 12 15:45:56 2014 -0600

    Import the SCN Core Support.

diff --git a/@canlab_dataset/add_var.m b/@canlab_dataset/add_var.m
new file mode 100644
index 0000000..1876c74
--- /dev/null
+++ b/@canlab_dataset/add_var.m
@@ -0,0 +1,57 @@
+% Not complete yet. Please edit me
+% 
+% Function for adding a variable to a dataset in a systematic way.
+% - Checks IDs of subjects to make sure data is added in the correct order.
+% - Values for missing data are coded as missing values, as specified in dat.Description.Missing_Values
+% - Handles Subject_Level or Event_Level data
+
+varname = 'ValenceType';

but indeed I would say the idea likely was to allow for human errors , but I think it was a mistake to not amplify here: allowing errors in one place in the code leads to the need to spread such need to all places where such mistakes could be made etc. So I would really advise against expanding, but to just add a correct value here... looking back at me making mistake and adding correct value second time, I think we just need

Suggested change
case {'sagg', 'sagittal', 'sagittal'}
case {'sagg', 'sagittal', 'sagittal'} # codespell:ignore

and be done here!

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@jcf2 jcf2 Sep 15, 2025

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I agree with that reasoning, but I don't understand the change line. Why two copies of 'sagittal'? Why not the correct spelling of 'sag'?

I would think it would be just case {'sag', 'sagittal'} to follow those principles (optionally with codespell:ignore but I'm guessing it cannot "correct" anything in this line erroneously so that part seems unnecessary, if not intentionally preserving bad spelling...?).


whcol = 1;

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10 changes: 5 additions & 5 deletions CanlabCore/@fmridisplay/fmridisplay.m
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Expand Up @@ -29,17 +29,17 @@
% obj = montage(obj, 'spacing', 4);
% obj = addblobs(obj, cl, 'trans', 'color', [0 0 1], 'smooth');
%
% Add axial and parasaggital montages to the same figure:
% Add axial and parasagittal montages to the same figure:
% o2 = montage(o2, 'axial', 'slice_range', [-40 50], 'onerow', 'spacing', 6);
% axh = axes('Position', [0.03 0.45 .1 .5]);
% o2 = montage(o2, 'saggital', 'wh_slice', [0 0 0], 'existing_axes', axh);
% o2 = montage(o2, 'sagittal', 'wh_slice', [0 0 0], 'existing_axes', axh);
%
% Add blue outlines only:
% obj = addblobs(obj, cl, 'outline', 'color', [0 0 1]);
%
% Sagittal images and blobs:
% o2 = fmridisplay;
% o2 = montage(o2, 'saggital', 'slice_range', [-20 20], 'onerow');
% o2 = montage(o2, 'sagittal', 'slice_range', [-20 20], 'onerow');
% o2 = addblobs(o2, cl);
% legend(o2, 'figure')
% o2 = addblobs(o2, cl, 'contour', 'color', [0 1 0]);
Expand All @@ -50,7 +50,7 @@
%
% Overlapping sagittal and axial images with outlines
% o2 = fmridisplay;
% o2 = montage(o2, 'saggital', 'slice_range', [-10 10], 'onerow');
% o2 = montage(o2, 'sagittal', 'slice_range', [-10 10], 'onerow');
% enlarge_axes(gcf, 1.2);
% o2 = montage(o2, 'axial', 'slice_range', [-40 50], 'onerow', 'spacing', 4);
% o2 = addblobs(o2, cl, 'splitcolor', {[0 0 1] [.3 0 .8] [.8 .3 0] [1 1 0]});
Expand All @@ -61,7 +61,7 @@
% o2 = addblobs(o2, cl, 'splitcolor', {[0 0 1] [0 1 1] [1 .5 0] [1 1 0]}, 'cmaprange', [-2 2], 'trans');
% o2 = addblobs(o2, cl, 'splitcolor', {[0 0 1] [0 1 1] [1 .5 0] [1 1 0]}, 'cmaprange', [-2 2], 'transvalue', .85);
%
% o2 = montage(o2, 'saggital', 'slice_range', [-6 6], 'onerow');
% o2 = montage(o2, 'sagittal', 'slice_range', [-6 6], 'onerow');
% o2 = montage(o2, 'axial', 'slice_range', [-20 30], 'onerow', 'spacing', 8);
% xyz = a list of [x y z] coordinates, one coord per row
% o2 = montage(o2, 'axial', 'wh_slice', xyz, 'onerow');
Expand Down
16 changes: 8 additions & 8 deletions CanlabCore/@fmridisplay/montage.m
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Expand Up @@ -3,7 +3,7 @@
% - Solid brain slices or contour outlines
% - Points or text labels or both
% - Flexible slice spacing, colors, marker sizes/styles, axis layout (one row/standard square)
% - axial or saggital orientation
% - axial or sagittal orientation
%
% :Usage:
% ::
Expand Down Expand Up @@ -36,7 +36,7 @@
% **{'close', 'closeenough', 'close_enough'}:**
% close_enough = varargin{i+1};
%
% **{'sagg','saggital','sagittal'}:**
% **{'sagg','sagittal','sagittal'}:**
% orientation = 'sagittal';
%
% **{'MarkerSize', 'markersize'}:**
Expand Down Expand Up @@ -70,7 +70,7 @@
% followed my mm values for slices desired
% e.g., for cluster/region centers, xyz = cat(1, cl.mm_center)
% o2 = montage(o2, 'axial', 'wh_slice', xyz, 'onerow');
% o2 = montage(o2, 'saggital', 'wh_slice', xyz, 'onerow');
% o2 = montage(o2, 'sagittal', 'wh_slice', xyz, 'onerow');
%
% **'spacing':**
% followed by inter-slice spacing in mm
Expand Down Expand Up @@ -109,15 +109,15 @@
% ::
%
% axh = axes('Position', [0.05 0.4 .1 .5]);
% o2 = montage(o2, 'saggital', 'wh_slice', xyz(1,:), 'existing_axes', axh);
% o2 = montage(o2, 'sagittal', 'wh_slice', xyz(1,:), 'existing_axes', axh);
%
% o2 = montage(o2, 'saggital', 'slice_range', [-10 10], 'onerow');
% o2 = montage(o2, 'sagittal', 'slice_range', [-10 10], 'onerow');
% o2 = montage(o2, 'axial', 'slice_range', [-40 50], 'onerow', 'spacing', 4);
% o2 = montage(o2, 'axial', 'slice_range', [-20 30], 'onerow', 'spacing', 8);
% o2 = montage(o2, 'axial', 'wh_slice', xyz, 'onerow');
%
% % Parasaggital only:
% o2 = montage(o2, 'saggital', 'slice_range', [-4 4], 'onerow', 'spacing', 8);
% % Parasagittal only:
% o2 = montage(o2, 'sagittal', 'slice_range', [-4 4], 'onerow', 'spacing', 8);
%
% Add/remove blobs and points with fmridisplay.addblobs,
% fmridisplay.addpoints, fmridisplay.removeblobs, fmridisplay.removepoints
Expand Down Expand Up @@ -194,7 +194,7 @@
varargin{i+1} = [];
varargin{i} = [];

case {'sag', 'sagg','saggital','sagittal'}, myview = 'sagittal';
case {'sag', 'sagg','sagittal','sagittal'}, myview = 'sagittal';

case {'cor', 'coronal'}, myview = 'coronal';

Expand Down
4 changes: 2 additions & 2 deletions CanlabCore/@fmridisplay/zoom_in_on_regions.m
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Expand Up @@ -2,7 +2,7 @@ function zoom_in_on_regions(o2, cl, orientation)
% Assumes you have one axis per region in a montage registered in an
% fmridisplay object (o2). Given the object o2, which montage to adjust
% (montage_num), a corresponding region object with coordinates (cl), and an
% orientation ('axial', 'saggital', or 'coronal'), this object method zooms
% orientation ('axial', 'sagittal', or 'coronal'), this object method zooms
% in on each cluster by adjusting the axes.
%
% Tor Wager, Feb 2018
Expand All @@ -25,7 +25,7 @@ function zoom_in_on_regions(o2, cl, orientation)
xl = xyzminmax(1, :);
yl = xyzminmax(2, :);

case 'saggital'
case 'sagittal'
xl = xyzminmax(2, :);
yl = xyzminmax(3, :);

Expand Down
24 changes: 12 additions & 12 deletions CanlabCore/@image_vector/display_slices.m
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function [whsl, plate] = display_slices(dat, varargin)
% Creates 3 separate montage views - ax, cor, sagg in a special figure window
%
% - By default, a figure with axial, coronal, and saggital montages are
% - By default, a figure with axial, coronal, and sagittal montages are
% created. But it's also easy to create nicer-looking separate figures with
% only one view.
% - Also easy to select slices: Enter 'startslice' and 'endslice', each followed by values, to display
Expand All @@ -20,7 +20,7 @@
%
% :Inputs:
%
% **'axial', 'saggital', 'sagittal', 'coronal':**
% **'axial', 'sagittal', 'sagittal', 'coronal':**
% Keywords to control view
%
% **'spacing'**
Expand Down Expand Up @@ -60,14 +60,14 @@
%
% display_slices(dat);
% display_slices(dat, 'coronal');
% display_slices(dat, 'saggital', 'spacing', 10); % 10 mm spacing
% display_slices(dat, 'saggital', 'spacing', 10, 'vertical');
% display_slices(dat, 'saggital', 'slices_per_row', 12);
% display_slices(dat, 'sagittal', 'spacing', 10); % 10 mm spacing
% display_slices(dat, 'sagittal', 'spacing', 10, 'vertical');
% display_slices(dat, 'sagittal', 'slices_per_row', 12);
% display_slices(dat, 'axial', 'slices_per_row', 20, 'spacing', 4, 'startslice', -10, 'endslice', 10); % z = -10 to 10 mm, 4 mm spacing
%
% Make a montage of a subset of slices and make it fill the figure:
% create_figure('sagg')
% display_slices(dat, 'saggital', 'slices_per_row', 4, 'spacing', 3, 'startslice', -20, 'endslice', 20)
% display_slices(dat, 'sagittal', 'slices_per_row', 4, 'spacing', 3, 'startslice', -20, 'endslice', 20)
% set(gca, 'Position', [.05 .05 .9 1]);
% colormap gray
%
Expand Down Expand Up @@ -96,7 +96,7 @@
if ischar(varargin{i})
switch varargin{i}
% reserved keywords
case {'axial', 'saggital', 'sagittal', 'coronal'}, myview = varargin{i};
case {'axial', 'sagittal', 'sagittal', 'coronal'}, myview = varargin{i};
case 'spacing', spacing = varargin{i + 1};
case 'vertical', stackorient = 1;
case 'slices_per_row', s = varargin{i + 1};
Expand Down Expand Up @@ -127,7 +127,7 @@
fh = create_figure('slice_display');
axis off
ax1 = axes('OuterPosition', [.05 .05 .20 .90], 'Position', [.05 .05 .20 .90]);
display_slices(dat, 'saggital', 'spacing', 8, 'vertical');
display_slices(dat, 'sagittal', 'spacing', 8, 'vertical');

ax2 = axes('OuterPosition', [.229 .05 .8 .150]); %[.20 .05 .8 .30]);
set(ax2, 'Position', get(ax2, 'OuterPosition'));
Expand Down Expand Up @@ -160,7 +160,7 @@
switch myview
case 'axial'
wh_col = 3;
case {'saggital', 'sagittal'}
case {'sagittal', 'sagittal'}
wh_col = 1;
case 'coronal'
wh_col = 2;
Expand Down Expand Up @@ -240,7 +240,7 @@ otherwise error('unknown slice view.')
subvol = abs(vdat(:, :, whsl));
sumabsval = sum(sum(subvol, 1), 2);

case {'saggital', 'sagittal'}
case {'sagittal', 'sagittal'}
subvol = abs(vdat(whsl, :, :));
sumabsval = sum(sum(subvol, 2), 3);

Expand Down Expand Up @@ -285,7 +285,7 @@ otherwise error('unknown slice view.')
case 'axial'
stacked{i} = vdat(:, :, i);
stacked{i} = rot90(stacked{i});
case {'saggital', 'sagittal'}
case {'sagittal', 'sagittal'}
stacked{i} = squeeze(vdat(i, :, :));
stacked{i} = rot90(stacked{i});
case 'coronal'
Expand Down Expand Up @@ -361,7 +361,7 @@ otherwise error('unknown slice view.')
nullvox = vdat == 0 | isnan(vdat);
bottom = all(nullvox, 3);

if strcmp(myview, 'saggital') || strcmp(myview, 'sagittal')
if strcmp(myview, 'sagittal') || strcmp(myview, 'sagittal')
% skip
else
nullx = squeeze(all(bottom, 2));
Expand Down
6 changes: 3 additions & 3 deletions CanlabCore/@image_vector/slices.m
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Expand Up @@ -13,7 +13,7 @@
% :Optional Inputs:
%
% **orientation:**
% can be followed by 'saggital', 'axial', or 'coronal'
% can be followed by 'sagittal', 'axial', or 'coronal'
%
% **slice_mm:**
% is followed by the mm coord of the slice to display; default = 0
Expand Down Expand Up @@ -50,14 +50,14 @@
% slices(dat, 'slice', -5); % display sagg at x = -5
% o = slices(dat, 'names', terms); % use 'terms' var as names
%
% o2 = slices(all_chi2_images, 'orientation', 'saggital', 'slice', 0);
% o2 = slices(all_chi2_images, 'orientation', 'sagittal', 'slice', 0);
%
% ..
% Copyright 2011, Tor Wager
% ..

slice_mm = 0;
my_orientation = 'saggital';
my_orientation = 'sagittal';
nimgs = size(obj.dat, 2);
dosplitcolor = 1;
outlinecolor = [];
Expand Down
2 changes: 1 addition & 1 deletion CanlabCore/@statistic_image/multi_threshold.m
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Expand Up @@ -369,7 +369,7 @@
%
% o2 = montage(o2, 'axial', 'slice_range', [-40 50], 'onerow', 'spacing', 6, 'noverbose');
% axh = axes('Position', [0.05 0.4 .1 .5]);
% o2 = montage(o2, 'saggital', 'wh_slice', [0 0 0], 'existing_axes', axh, 'noverbose');
% o2 = montage(o2, 'sagittal', 'wh_slice', [0 0 0], 'existing_axes', axh, 'noverbose');

end
end
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4 changes: 2 additions & 2 deletions CanlabCore/Cluster_contig_region_tools/Cluster-based_multivar_tools/cluster_nmdsfig.m
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Expand Up @@ -288,8 +288,8 @@
% cluster_orthviews_showcenters(cl,'coronal',overlay);
% save_figure('cluster_slices_coronal');
%
% cluster_orthviews_showcenters(cl,'saggital',overlay);
% save_figure('cluster_slices_saggital');
% cluster_orthviews_showcenters(cl,'sagittal',overlay);
% save_figure('cluster_slices_sagittal');
end

diary off
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2 changes: 1 addition & 1 deletion CanlabCore/Data_extraction/readim2.m
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Expand Up @@ -14,7 +14,7 @@
% to plot montage of slices to the screen
%
% **sagg:**
% to rotate to saggital view
% to rotate to sagittal view
%
% **cor:**
% to rotate to coronal view
Expand Down
4 changes: 2 additions & 2 deletions CanlabCore/ROI_drawing_tools/draw_anatomical_roi.m
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Expand Up @@ -45,8 +45,8 @@
vol = double(vol);


dosagg = input('Press 1 to choose saggital slices, or 0 for axial.');
% if saggital, use vol, not rvol
dosagg = input('Press 1 to choose sagittal slices, or 0 for axial.');
% if sagittal, use vol, not rvol
% y is not reversed
% ginput x = brain y, ginput y = brainz, slice = x

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4 changes: 2 additions & 2 deletions CanlabCore/ROI_drawing_tools/draw_anatomical_roi_2008.m
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Expand Up @@ -107,7 +107,7 @@ function draw_anatomical_roi_2008(meth, varargin)
meth = 'exit';

case 'freesagg'
disp('Draw freehand region on the saggital slice in Slices fig.');
disp('Draw freehand region on the sagittal slice in Slices fig.');
data = get_gui_data;
axis_handle = data.saggh;
draw_freehand(axis_handle);
Expand Down Expand Up @@ -667,7 +667,7 @@ function smooth_vol(varargin)
str = 'draw_anatomical_roi_2008(''freesagg'');';
str = expand_callback_str(str);

uicontrol(f,'String','Draw (saggital)',...
uicontrol(f,'String','Draw (sagittal)',...
'Position',[x2start 200-35*0 150 30],...
'CallBack', str,...
'Interruptible','on',...
Expand Down
2 changes: 1 addition & 1 deletion CanlabCore/Statistics_tools/Cross_validated_Regression/xval_bestsubsets_brain.m
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Expand Up @@ -537,7 +537,7 @@
% % % CV(1) (leave-one-out cross-validation)
% % % it estimates "half-sample" xval
% %
% % bootfun = @(Y, X) xval_regression_boostrap_wrapper(Y, X);
% % bootfun = @(Y, X) xval_regression_bootstrap_wrapper(Y, X);
% % STATS_FINAL.bootstrap.covs_only_r_rsq = bootstrp(200, bootfun, my_outcomes_orig{1}, covs{1});
% % STATS_FINAL.bootstrap.covs_only_summary = [mean(STATS_FINAL.bootstrap.covs_only_r_rsq) std(STATS_FINAL.bootstrap.covs_only_r_rsq) ];
% % STATS_FINAL.bootstrap.covs_only_summary_descrip = 'mean std of bootstrapped values'
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2 changes: 1 addition & 1 deletion CanlabCore/Statistics_tools/Cross_validated_Regression/xval_lasso_brain.m
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Expand Up @@ -618,7 +618,7 @@
% % % CV(1) (leave-one-out cross-validation)
% % % it estimates "half-sample" xval
% %
% % bootfun = @(Y, X) xval_regression_boostrap_wrapper(Y, X);
% % bootfun = @(Y, X) xval_regression_bootstrap_wrapper(Y, X);
% % STATS_FINAL.bootstrap.covs_only_r_rsq = bootstrp(200, bootfun, my_outcomes_orig{1}, covs{1});
% % STATS_FINAL.bootstrap.covs_only_summary = [mean(STATS_FINAL.bootstrap.covs_only_r_rsq) std(STATS_FINAL.bootstrap.covs_only_r_rsq) ];
% % STATS_FINAL.bootstrap.covs_only_summary_descrip = 'mean std of bootstrapped values'
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2 changes: 1 addition & 1 deletion CanlabCore/Statistics_tools/Cross_validated_Regression/xval_lasso_brain_featureselect.m
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Expand Up @@ -455,7 +455,7 @@ function permuted_histogram_plot(STATS_FINAL)
% % % CV(1) (leave-one-out cross-validation)
% % % it estimates "half-sample" xval
% %
% % bootfun = @(Y, X) xval_regression_boostrap_wrapper(Y, X);
% % bootfun = @(Y, X) xval_regression_bootstrap_wrapper(Y, X);
% % STATS_FINAL.bootstrap.covs_only_r_rsq = bootstrp(200, bootfun, my_outcomes_orig{1}, covs{1});
% % STATS_FINAL.bootstrap.covs_only_summary = [mean(STATS_FINAL.bootstrap.covs_only_r_rsq) std(STATS_FINAL.bootstrap.covs_only_r_rsq) ];
% % STATS_FINAL.bootstrap.covs_only_summary_descrip = 'mean std of bootstrapped values'
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2 changes: 1 addition & 1 deletion ...istics_tools/Cross_validated_Regression/xval_regression_multisubject_bootstrapweightmap.m
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Expand Up @@ -547,7 +547,7 @@ function nested_choose_ndims()
obj = montage(obj, 'onerow'); % Show axial montage of underlay
%obj = montage(obj, 'axial', 'slice_range', [-40 55], 'onerow', 'spacing', 8);
enlarge_axes(gcf, .95);
obj = montage(obj, 'saggital', 'slice_range', [-6 6], 'onerow');
obj = montage(obj, 'sagittal', 'slice_range', [-6 6], 'onerow');

for i = 1:length(thresh)

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2 changes: 1 addition & 1 deletion CanlabCore/Statistics_tools/Cross_validated_Regression/xval_ridge_brain.m
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Expand Up @@ -494,7 +494,7 @@
% % % CV(1) (leave-one-out cross-validation)
% % % it estimates "half-sample" xval
% %
% % bootfun = @(Y, X) xval_regression_boostrap_wrapper(Y, X);
% % bootfun = @(Y, X) xval_regression_bootstrap_wrapper(Y, X);
% % STATS_FINAL.bootstrap.covs_only_r_rsq = bootstrp(200, bootfun, my_outcomes_orig{1}, covs{1});
% % STATS_FINAL.bootstrap.covs_only_summary = [mean(STATS_FINAL.bootstrap.covs_only_r_rsq) std(STATS_FINAL.bootstrap.covs_only_r_rsq) ];
% % STATS_FINAL.bootstrap.covs_only_summary_descrip = 'mean std of bootstrapped values'
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