diff --git a/docs/_static/sub-01_task-mixedgamblestask_run-01_bold_carpetplot.svg b/docs/_static/sub-01_task-mixedgamblestask_run-01_bold_carpetplot.svg deleted file mode 100644 index 15baecf76..000000000 --- a/docs/_static/sub-01_task-mixedgamblestask_run-01_bold_carpetplot.svg +++ /dev/null @@ -1,2691 +0,0 @@ - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - diff --git a/docs/_static/sub-405_ses-01_task-rest_run-01_desc-carpetplot_bold.svg b/docs/_static/sub-405_ses-01_task-rest_run-01_desc-carpetplot_bold.svg new file mode 100644 index 000000000..9b06e755a --- /dev/null +++ b/docs/_static/sub-405_ses-01_task-rest_run-01_desc-carpetplot_bold.svg @@ -0,0 +1,2406 @@ + + + + + + + + 2022-08-09T16:28:36.667508 + image/svg+xml + + + Matplotlib v3.5.2, https://matplotlib.org/ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/docs/outputs.rst b/docs/outputs.rst index 4329c0ffd..a51d65d26 100644 --- a/docs/outputs.rst +++ b/docs/outputs.rst @@ -555,15 +555,18 @@ Some of the estimated confounds are plotted with a "carpet" visualization of the :abbr:`BOLD (blood-oxygen level-dependent)` time series [Power2016]_. An example of these plots follows: -.. figure:: _static/sub-01_task-mixedgamblestask_run-01_bold_carpetplot.svg +.. figure:: _static/sub-405_ses-01_task-rest_run-01_desc-carpetplot_bold.svg The figure shows on top several confounds estimated for the BOLD series: - global signals ('GlobalSignal', 'WM', 'GM'), standardized DVARS ('stdDVARS'), - and framewise-displacement ('FramewiseDisplacement'). - At the bottom, a 'carpetplot' summarizing the BOLD series. - The color-map on the left-side of the carpetplot denotes signals located - in cortical gray matter regions (blue), subcortical gray matter (orange), - cerebellum (green) and the union of white-matter and CSF compartments (red). + global signals ('GS', 'GSCSF', 'GSWM'), DVARS, + and framewise-displacement ('FD'). + At the bottom, a 'carpetplot' summarizing the BOLD series [Power2016]_. + The carpet plot rows correspond to voxelwise time series, + and are separated into regions: cortical gray matter, deep + gray matter, white matter and cerebrospinal fluid, cerebellum + and the brain-edge or “crown” [Provins2022]_. + The crown corresponds to the voxels located on a + closed band around the brain [Patriat2015]_. Noise components computed during each CompCor decomposition are evaluated according to the fraction of variance that they explain across the nuisance ROI. @@ -673,6 +676,10 @@ the following invocation:: and sensitivity of motion correction strategies for resting-state functional MRI. NeuroImage. 2018. doi:`10.1016/j.neuroimage.2017.12.073 `_ + .. [Patriat2015] Patriat R, EK Molloy, RM Birn, T. Guitchev, and A. Popov. ,Using Edge Voxel Information to + Improve Motion Regression for Rs-FMRI Connectivity Studies. Brain Connectivity. 2015. + doi:`10.1089/brain.2014.0321 `_. + .. [Patriat2017] Patriat R, Reynolds RC, Birn RM, An improved model of motion-related signal changes in fMRI. NeuroImage. 2017. doi:`10.1016/j.neuroimage.2016.08.051 `_.