001-arcuate_tract_profiles.ipynb

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   "execution_count": null,
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   "source": [
    "import os.path as op\n",
    "import AFQ.data as afd\n",
    "from AFQ.definitions.mask import RoiMask\n",
    "from AFQ.definitions.mapping import AffMap\n",
    "from AFQ import api"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "myafq = api.AFQ(bids_path=op.join(afd.afq_home, 'stanford_hardi'),\n",
    "                dmriprep='vistasoft',\n",
    "                tracking_params={\"n_seeds\": 1,\n",
    "                                 \"directions\": \"det\",\n",
    "                                 \"odf_model\": \"DTI\",\n",
    "                                 \"seed_mask\": RoiMask()},\n",
    "                bundle_info=[\"ARC\"],\n",
    "                mapping=AffMap(),\n",
    "                viz_backend='plotly_no_gif')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {},
   "outputs": [],
   "source": [
    "tract_profiles = pd.read_csv(myafq.tract_profiles[0])"
   ]
  }
 ],
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