Package index • bancr

All functions

banc.surf banc_neuropil.surf banc_brain_neuropil.surf banc_vnc_neuropil.surf banc_neck_connective.surf banc_brain_neuropils.surf banc_al.surf banc_vnc_neuropils.surf banc_vnc_tracts.surf banc_vnc_nerves.surf banc_hemibrain.surf banc_volumes.df: Simplified tissue and neuropil surfaces for BANC

banc_add_synapses(): Add synapses to neuron objects

banc_all_synapses(): Download all of the BANC synapses as a .sqlite file that you can read lazily from later

banc_annotate_backbone_proofread(): Annotate positions as backbone proofread

banc_cave_client(): Low level access to banc's CAVE annotation infrastructure

banc_cave_query(): Query banc tables in the CAVE annotation system

banc_cave_tables() banc_cave_views() banc_edgelist() banc_mitochondria() banc_nuclei() banc_cell_info() banc_proofreading_notes() banc_cell_ids() banc_neck_connective_neurons() banc_peripheral_nerves() banc_backbone_proofread() banc_nt_prediction() banc_version(): Read BANC CAVE-tables, good sources of metadata

banc_cellid_from_segid() banc_segid_from_cellid(): Convert between BANC cell ids and root ids

banc_change_log(): Fetch change log information for one or more neurons

banc_codex_annotations(): Read BANC-FlyWireCodex annotation table

banc_codex_network(): Generate FlyWireCodex network visualization URLs for BANC v626 dataset

banc_codex_search(): Generate FlyWireCodex search URLs for BANC v626 dataset

banc_decapitate(): Subset points to be in the brain or in the VNC

banc_ids(): Return a vector of banc root ids from diverse inputs

banc_islatest(): Check if a banc root id is up to date

banc_latestid() banc_updateids(): Find the latest id for a banc root id

banc_leaves(): Find the supervoxel identifiers of a banc neuron

banc_meta(): Query cached BANC meta data

banc_meta_create_cache(): Create or refresh cache of BANC meta information

banc_mirror(): Mirror BANC Connectome Points

banc_mirror_tpsreg: Thin-Plate Spline Registration for Mirroring in BANC Space

banc_neuron_comparison_plot(): Compare two neurons from the BANC connectome dataset

banc_partner_summary() banc_partners(): Summarise the connectivity of BANC neurons

banc_read_l2dp() banc_read_l2skel(): Read L2 skeleton or dotprops for BANC neurons using fafbseg-py

banc_read_neuroglancer_mesh(): Read BANC euroglancer meshes, e.g., ROI meshes

banc_read_neuron_meshes() banc_read_mitochondria_mesh() banc_read_nuclei_mesh(): Read one or more BANC neuron and nuclei meshes

banc_reroot(): Re-root BANC neuron skeleton at soma

banc_rootid(): Find the root identifier of a banc neuron

banc_scene(): Return a sample Neuroglancer scene URL for BANC dataset

banc_set_token(): Set the token to be used to authenticate to banc autosegmentation resources

banc_to_JRC2018F(): Transform Points between BANC Connectome and JRC2018F Template Brain

banc_to_jrc2018f_tpsreg jrc2018f_to_banc_tpsreg jrcvnc2018f_to_banc_tpsreg banc_to_jrcvnc2018f_tpsreg: Thin-Plate Spline Registration from BANC to JRC2018F template brain

banc_upload_mesh(): Upload Mesh to Google Cloud Storage for BANC Neuroglancer

banc_users: User information (name + CAVE ID) for active BANC users

banc_view() banc_side_view() banc_front_view() banc_vnc_view() banc_vnc_side_view() banc_brain_side_view(): Set Default View for BANC EM Dataset

banc_voxdims() banc_nm2raw() banc_raw2nm(): Handle raw and nm calibrated banc coordinates

banc_xyz2id(): Convert xyz locations to root or supervoxel ids

bancsee(): Visualise neurons across multiple Drosophila connectomic datasets in BANC spelunker

banctable_query() banctable_set_token() banctable_login() banctable_update_rows() banctable_move_to_bigdata() franken_meta() banctable_append_rows(): Read and write to the seatable for draft BANC annotations

choose_banc() with_banc(): Choose or (temporarily) use the banc autosegmentation

dr_banc(): Print information about your BANC setup including tokens and python modules

elastix_xform(): Perform Elastix Transform on 3D Points

navis_elastix_xform(): Apply Elastix Transform using Navis

register_banc_coconat(): Use BANC data with coconat for connectivity similarity