All functions
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aibs_dims()
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Dimensions for AIBS CCF data at different resolutions |
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aibs_organism_id()
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Organism ID used by the AIBS API |
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ccf_2017_color()
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Retrieve a set of CCF 2017 colors |
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ccf_2017_mesh()
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Retrieve a CCF 2017 mesh from the cocoframer package |
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cleanup_taxons()
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Clean up taxons by removing structures no longer present after filtering |
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compute_hierarchical()
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Compute values hierarchicaly over a flat ontology |
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filter_mba_ontology_children()
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Filter the MBA ontology to find children of a given structure acronym |
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flatten_mba_ontology()
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Convert a nested Mouse Brain Atlas ontology to a data.frame |
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generate_mba_taxons()
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Generate a taxon column that shows the "lineage" of each ontology term |
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generate_taxons()
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Generate a taxons column for a flattened ontology |
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get_aba_ish_data()
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Retrieve gridded ABA RNA ISH results for a specific SectionDataSet |
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get_aba_ish_structure_data()
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Get per-structure ABA RNA ISH results for a specific SectionDataSet |
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get_ccf_annotation()
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Download the CCF Annotation object and return a 3D Array of values |
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get_ccf_grid_annotation()
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Download the CCF Grid Annotation object and return a 3D Array of values |
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get_exp_gene_relationships()
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Query the ABA API to get relationships between ISH experiments and genes |
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get_gene_aba_ish_ids()
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Find ABA RNA ISH experiment IDs for a specific gene symbol |
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get_mba_ontology()
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Download the Mouse Brain Atlas ontology as a list object |
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hello()
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Hello, World! |
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mba_structure_id()
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Get the Mouse Brain Atlas numeric structure ID(s) for given structure acronym(s) |
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obj_to_mesh()
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Read a .obj file to get a rgl-compatible mesh object |
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plot_ccf_meshes()
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Plot 3D structures from the CCF |
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plot_ccf_structure_points()
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Plot a 3D CCF structure specified by its structure ID as points |
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read_aibs_nrrd()
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Read AIBS .nrrd files |
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read_rgl_mesh_zip()
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Read a mesh object from a zip file generated by save_rgl_mesh_zip() |
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save_rgl_mesh_zip()
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Save a mesh object to a zip file for later use |
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slice_ccf_arr()
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Slice a 3D CCF array to get a 2D matrix |