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@@ -906,7 +906,29 @@ The output HTML page ([07_T1_QC_ratings.html](https://github.com/PennLINC/grmpy_
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# Analysis
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## ASL
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CBF maps were generated using [`plot_asl_cbf_maps.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/plot_asl_cbf_maps.py).
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## fMRI
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ALFF and ReHo were generated using [`plot_alff_reho.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/plot_alff_reho.py).
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Atlasses were generated using [`plot_atlases.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/plot_atlases.py).
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Correlation matrices were generated using [`plot_corrmats.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/plot_corrmats.py).
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### GLM
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The fracback GLM was run using the [`run_fracback_glm_first_level.slurm`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/task_glm/run_fracback_glm_first_level.slurm) script which runs the [`run_fracback_glm_first_level.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/task_glm/run_fracback_glm_first_level.py) script for each subject and model type.
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Second-level GLM was run using the [`run_fracback_second_level.slurm`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/task_glm/run_fracback_second_level.slurm) script which runs the [`run_fracback_second_level.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/task_glm/run_fracback_second_level.py) script for each model type and contrast.
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Group figures were generated using [`create_group_figure.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/task_glm/create_group_figure.py).
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## QSI
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QSI Recon scalar maps were generated using [`plot_qsi_scalar_maps.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/plot_qsi_scalar_maps.py).
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Bundles were plotted using [`plot_afq_bundles.py`](https://github.com/PennLINC/grmpy_opendata/blob/main/analysis/plot_afq_bundles.py).
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