insects_brains_db

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insects_brains_db

Contents
​IBDB​
​__init__ [#55]​
​get_brain_id_from_species_name [#80]​
​get_structures_hierarchy [#97]​
​get_structures_reconstructions [#132]​
​get_brain [#216]​
​download_and_write_mesh [#245]​
​make_root_mesh [#262]​
​_get_structure_mesh [#281]​
​_check_valid_region_arg [#315]​
​_check_obj_file [#326]​
​get_region_color [#339]​
​get_brain_regions [#368]​
​add_descendants_to_tree [#98]​
IBDB
__init__ [#55]
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def __init__(self, species=None, sex=None, base_dir=None,
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    make_root=True, **kwargs):
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get_brain_id_from_species_name [#80]
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def get_brain_id_from_species_name(self, sel_species):
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get_structures_hierarchy [#97]
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def get_structures_hierarchy(self):
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get_structures_reconstructions [#132]
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def get_structures_reconstructions(self, species, sex):
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get_brain [#216]
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def get_brain(self, species=None, sex=None):
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download_and_write_mesh [#245]
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def download_and_write_mesh(self, acronym, obj_path):
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make_root_mesh [#262]
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def make_root_mesh(self):
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_get_structure_mesh [#281]
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def _get_structure_mesh(self, acronym, **kwargs):
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Fetches the mesh for a brain region from the atlas.
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​
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:param acronym: string, acronym of brain region
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​
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:param **kwargs:
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_check_valid_region_arg [#315]
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def _check_valid_region_arg(self, region):
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Check that the string passed is a valid brain region name.
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_check_obj_file [#326]
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def _check_obj_file(self, region, obj_file):
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If the .obj file for a brain region hasn't been downloaded already,
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    this function downloads it and writes it.
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​
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:param region: string, acronym of brain region
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​
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:param obj_file: path to .obj file to write downloaded data.
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get_region_color [#339]
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def get_region_color(self, regions):
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Gets the RGB color of a brain region from the atlas.
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​
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:param regions:  list of regions acronyms.
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get_brain_regions [#368]
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def get_brain_regions(self, brain_regions, alpha=None, colors=None,
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    use_original_color=True, **kwargs):
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add_descendants_to_tree [#98]
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def add_descendants_to_tree(tree, structure, parent_id=None):
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Recursively goes through all the the descendants of a region and adds
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    them to the tree
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