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Revise output directory details in quickstart guide
Updated output directory structure and corrected file extensions in the documentation.
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docs/getting_started/quickstart.md

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@@ -97,29 +97,12 @@ Processing time depends on:
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## Step 5: View Results
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After processing completes, find your results in the output directory:
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```
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output/spimquant/
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├── sub-01/
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│ ├── micr/
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│ │ ├── sub-01_sample-brain_acq-4x_stain-YOPRO_space-ABAv3_SPIM.nii.gz
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│ │ └── sub-01_sample-brain_acq-4x_mask.nii.gz
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│ ├── seg/
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│ │ └── sub-01_sample-brain_acq-4x_stain-Abeta_SPIM.ome.zarr
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│ ├── parc/
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│ │ └── sub-01_sample-brain_acq-4x_seg-ABAv3_from-ABAv3_dseg.nii.gz
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│ └── tabular/
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│ └── sub-01_sample-brain_acq-4x_seg-ABAv3_from-ABAv3_stain-Abeta_segstats.tsv
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└── group/
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├── *_groupstats.tsv
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└── *_groupstats.png
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```
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After processing completes, find your results in the output directory.
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Key output files:
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- `micr/*_space-{template}_SPIM.nii.gz`: Registered SPIM data in template space
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- `seg/*_SPIM.ome.zarr`: Full-resolution segmentation results
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- `seg/*_mask.ozx`: Full-resolution segmentation results
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- `parc/*_from-{template}_dseg.nii.gz`: Atlas-based parcellation maps
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- `tabular/*_segstats.tsv`: Quantitative statistics by brain region
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- `group/*_groupstats.tsv`: Group-level statistical results
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--contrast_column treatment \
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--contrast_values control drug \
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--cores all
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```
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```

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