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The last type of `neuroimaging` file we need to check are the (`binary`) `masks`, so let's do it for one example `mask`: the `ventral temporal cortex`. This mask has been generated as part of the Haxby et al. (2001) study {cite:p}`Haxby2001-vt`, and highlights a part of the brain specialized in the processing of visual information, and which contains areas sensitive to different types of image categories {cite:p}`grill-spector_functional_2014` . As with the types before, we can `load`,
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The last type of `neuroimaging` file we need to check are the (`binary`) `masks`, so let's do it for one example `mask`: the `ventral temporal cortex`. This mask has been generated as part of the Haxby et al. (2001) study {cite:p}`Haxby2001-vt`, and highlights a part of the brain specialized in the processing of visual information, and which contains areas sensitive to different types of image categories {cite:p}`grill-spector_functional_2014` . As with the types before, we can `load`,
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```{code-cell} ipython3
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vt_mask = load_img(haxby_dataset.mask_vt)
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```
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`inspect`
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`inspect`
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```{code-cell} ipython3
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print(vt_mask.header)
@@ -240,7 +240,7 @@ vt_mask.get_data()
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vt_mask.dataobj.shape
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```
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and `visualize` it (Here, we are going to plot it as an overlay on the `anatomical image`).
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and `visualize` it (Here, we are going to plot it as an overlay on the `anatomical image`).
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```{code-cell} ipython3
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plotting.plot_roi(vt_mask, bg_img=anat_image,
@@ -311,16 +311,15 @@ If you have any questions, please don't hesitate to ask us. Thank you very much
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```{bibliography}
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:filter: docname in docnames
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```
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```
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## Bonus: checking the stimuli
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As you saw above, our `tutorial dataset` actually also contains the `stimuli` utilized in the experiment. This pretty unique (because of e.g. copyright problems) but really cool. As we could use the `stimuli` for certain analyses, e.g. [encoding]() and/or comparing their processing in `biological` and `artificial neural networks`. However, this is unfortunately outside the scope of this session. Thus, we are just going to plot a few of them so you get an impression.
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We can examine one functional volume using nilearn's plotting tools. Because fmri data are 4D we use [nilearn.image.mean_img](https://nilearn.github.io/modules/generated/nilearn.image.mean_img.html#nilearn.image.mean_img) to extract the average brain volume.
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