natverse/hemibrainr
Code for Working with Data from Janelia FlyEM's Hemibrain Project and the flywire data sets``

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natverse/hemibrainr: Code for Working with Data from Janelia FlyEM's Hemibrain Project and the flywire data sets``
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API for natverse/hemibrainr
Code for Working with Data from Janelia FlyEM's Hemibrain Project and the flywire data sets``

Global functions
%>% Man page
%do% Man page
%dopar% Man page
.onAttach Source code
LR_matching Man page Source code
add_Label Man page Source code
add_Label.neuron Source code
add_Label.neuronlist Source code
add_blanks Source code
add_field Man page Source code
add_field.neuron Source code
add_field.neuronlist Source code
add_field_seq Man page Source code
aldf Source code
alln.ids Man page
alln.info Man page
alns Source code
apl.ids Man page
arbour_cable Man page Source code
arbour_cable.neuron Source code
arbour_cable.neuronlist Source code
axonal_endings Man page Source code
axonic_cable Man page Source code
axonic_cable.neuron Source code
axonic_cable.neuronlist Source code
axonic_endings Man page Source code
axonic_points Man page Source code
axonic_points.neuron Source code
axonic_points.neuronlist Source code
batch_somaupdate Source code
break_into_subtrees Source code
cable_width Source code
cable_width.neuron Source code
cable_width.neuronlist Source code
cached_read_sheet Source code
carryover_labels Source code
carryover_tags Source code
cbf_list Source code
cbf_method Source code
cent.ids Man page
cent.info Man page
change_points Source code
check_coord_nans Source code
check_package_available Source code
check_undoneids Source code
choose_user Source code
chunks Source code
class2ids Man page Source code
classed.ids Man page
collapse_matrix_by_names Source code
compartment_metrics Source code
correct_DBSCAN Source code
correct_gsheet Source code
correct_id Source code
correct_singles Source code
create_SomaData Source code
cvmesh2mesh Source code
cycle_branches Source code
dan.ids Man page
dbscan_neurons Source code
dendritic_cable Man page Source code
dendritic_cable.neuron Source code
dendritic_cable.neuronlist Source code
dendritic_endings Man page Source code
dendritic_points Man page Source code
dendritic_points.neuron Source code
dendritic_points.neuronlist Source code
dn.ids Man page
dn.info Man page
dndf Source code
dnns Source code
download_neuron_obj_batch Source code
emptytozero Source code
extract_elist Source code
extract_lookup Source code
extract_synapses Source code
fafb14_to_flywire_ids_timed Source code
fafb14_view Source code
fafb_hemibrain_annotate Man page Source code
fafb_lineage_complete_wipe Source code
fafb_matching Man page Source code
fafb_matching_rewrite Man page Source code
fafb_set_hemilineage Man page Source code
fafb_set_transmitter Man page Source code
find_and_replace_snakecase Source code
find_gfile Source code
find_gsql Source code
fix_missing_soma Source code
flow_centrality Man page Source code
flow_centrality.neuron Source code
flow_centrality.neuronlist Source code
flycircuit_matching_rewrite Man page Source code
flycircuit_neurons Man page Source code
flytable_matches Source code
flytable_matches_meta_update Source code
flytable_matches_update Source code
flytable_meta Source code
flytable_soma Source code
flytable_update_hl_predictions Source code
flytable_update_proofread Source code
flytable_update_side Source code
flytable_update_status Source code
flytable_update_top_nt Source code
flywire_al.surf Man page
flywire_annotation_csv Man page Source code
flywire_annotations_for_synapses Man page Source code
flywire_ans Source code
flywire_basics Man page Source code
flywire_connections Man page Source code
flywire_contributions Man page Source code
flywire_deploy_workflows Man page Source code
flywire_dns Man page Source code
flywire_elist Man page Source code
flywire_failed Man page Source code
flywire_googledrive_data Man page
flywire_gradient_scene Source code
flywire_gsheet_update_ids Source code
flywire_hemibrain_scene Man page Source code
flywire_ids Man page Source code
flywire_ids_update Man page Source code
flywire_in Man page Source code
flywire_matching_gsheet_rewrite Man page Source code
flywire_meta Man page Source code
flywire_neurons Man page Source code
flywire_process_synapses Source code
flywire_read_metrics_csvs Source code
flywire_read_swc Source code
flywire_read_swc_split Source code
flywire_read_synapse_csvs Source code
flywire_request Man page Source code
flywire_reroot Source code
flywire_reroot.neuron Source code
flywire_reroot.neuronlist Source code
flywire_synapse_simplify Man page Source code
flywire_synapses Man page Source code
flywire_syns_nt Source code
flywire_tracing_sheet Man page Source code
flywire_tracing_sheets Man page
flywire_tracing_sheets.now Source code
flywire_tracing_standardise Man page Source code
flywire_tracing_update Man page Source code
flywire_update_workflow Source code
flywire_verified_synapses Man page Source code
flywire_workflow Source code
fw.nt.cmat Man page
generate_update Source code
geodesic_distance Man page Source code
geodesic_distance.neuron Man page Source code
geodesic_distance.neuronlist Man page
get_idfield Source code
get_match_neuron Source code
get_matching_flytable Source code
get_os Source code
get_top_nt Source code
glomerulus Man page Source code
good_savedir Source code
google_drive_place Source code
googledrive_clean_neuronlistfh Source code
googledrive_downloadmany Source code
googledrive_simpledownload Source code
googledrive_upload_nblast Source code
googledrive_upload_neuronlistfh Source code
grouped_adjacency Man page Source code
gsheet_manipulation Source code
gsheet_method Source code
gsheet_reorder Source code
gsheet_update_cols Source code
hb.nt.cmat Man page
hemibrain.surf Man page
hemibrain_add_made_matches Man page Source code
hemibrain_add_nt Source code
hemibrain_add_nt.neuron Source code
hemibrain_add_nt.neuronlist Source code
hemibrain_adjust_saved_somas Man page Source code
hemibrain_adjust_saved_split Man page Source code
hemibrain_al.surf Man page
hemibrain_al_microns.surf Man page
hemibrain_all_splitpoints Man page
hemibrain_blender_colors Man page
hemibrain_blender_colours Man page
hemibrain_bright_colors Man page
hemibrain_bright_colour_ramp Man page
hemibrain_bright_colours Man page
hemibrain_carryover_labels Source code
hemibrain_carryover_tags Man page Source code
hemibrain_cbf Man page Source code
hemibrain_choice Source code
hemibrain_clean_skeleton Man page Source code
hemibrain_clean_skeleton.neuron Source code
hemibrain_clean_skeleton.neuronlist Source code
hemibrain_colors Man page
hemibrain_colour_ramp Man page
hemibrain_colours Man page
hemibrain_compartment_metrics Man page Source code
hemibrain_connections Man page Source code
hemibrain_connectivity_similarity Man page Source code
hemibrain_connectivity_similarity.matrix Man page Source code
hemibrain_connectivity_similarity.numeric Man page Source code
hemibrain_connectivity_similarity_distance Man page Source code
hemibrain_connectivity_similarity_matrix Man page Source code
hemibrain_correctsoma Man page Source code
hemibrain_cut Man page Source code
hemibrain_download_neurons Man page Source code
hemibrain_edit_cable Source code
hemibrain_elist Man page Source code
hemibrain_engage Source code
hemibrain_extract_compartment_edgelist Man page Source code
hemibrain_extract_connections Man page Source code
hemibrain_extract_synapses Man page Source code
hemibrain_fig_colors Man page
hemibrain_fig_colours Man page
hemibrain_flow_centrality Man page Source code
hemibrain_flow_centrality.neuron Source code
hemibrain_flow_centrality.neuronlist Source code
hemibrain_flywire_match_check Source code
hemibrain_get_meta Man page Source code
hemibrain_glomeruli_summary Man page
hemibrain_hemilineages Man page
hemibrain_invert Source code
hemibrain_iscropped Source code
hemibrain_makenote Source code
hemibrain_match_sheet Source code
hemibrain_matched Man page
hemibrain_matches Man page Source code
hemibrain_matching Man page Source code
hemibrain_matching_add Man page Source code
hemibrain_matching_rewrite Man page Source code
hemibrain_matching_transfers Man page Source code
hemibrain_meta Man page Source code
hemibrain_metrics Man page
hemibrain_metrics_polypre_centrifugal_distance Man page
hemibrain_metrics_polypre_centrifugal_synapses Man page
hemibrain_microns.surf Man page
hemibrain_mito_meshes Man page Source code
hemibrain_multi3d Man page Source code
hemibrain_nblast Man page Source code
hemibrain_neuron_bodyids Man page Source code
hemibrain_neuron_mesh Source code
hemibrain_neuron_meshes Man page Source code
hemibrain_neurons Man page Source code
hemibrain_ntplot Source code
hemibrain_ntplot.character Source code
hemibrain_ntplot.data.frame Source code
hemibrain_ntplot.neuron Source code
hemibrain_ntplot.neuronlist Source code
hemibrain_olfactory_layers Man page
hemibrain_overlap_locality Man page Source code
hemibrain_perfectstart Source code
hemibrain_perfectstart.neuron Source code
hemibrain_perfectstart.neuronlist Source code
hemibrain_precomputed_splitpoints Man page
hemibrain_prune_online Man page Source code
hemibrain_prune_online.neuron Man page
hemibrain_prune_online.neuronlist Man page
hemibrain_read_neurons Man page Source code
hemibrain_reroot Man page Source code
hemibrain_reroot.neuron Source code
hemibrain_reroot.neuronlist Source code
hemibrain_roi_meshes Man page Source code
hemibrain_seetags Man page Source code
hemibrain_seetags.neuron Man page Source code
hemibrain_seetags.neuronlist Man page Source code
hemibrain_select_cable Source code
hemibrain_select_points Source code
hemibrain_settags Man page Source code
hemibrain_settags.neuron Man page Source code
hemibrain_settags.neuronlist Man page Source code
hemibrain_skeleton_check Man page Source code
hemibrain_somas Man page
hemibrain_splitpoints Man page Source code
hemibrain_splitpoints_polypre_centrifugal_distance Man page
hemibrain_splitpoints_polypre_centrifugal_synapses Man page
hemibrain_splitpoints_pre_centrifugal_distance Man page
hemibrain_synapses Man page Source code
hemibrain_syns_nt Source code
hemibrain_task_update Man page Source code
hemibrain_type_plot Man page Source code
hemibrain_use_splitpoints Man page Source code
hemibrain_use_splitpoints.neuron Source code
hemibrain_use_splitpoints.neuronlist Source code
hemibrain_view Man page Source code
hemibrainr Man page
hemibrainr-package Man page
hemibrainr_folder_structure Source code
hemibrainr_google_login Source code
hemibrainr_googledrive_data Man page
hemibrainr_rclone Man page Source code
hemibrainr_rclone_unmount Man page Source code
hemibrainr_set_drive Man page Source code
hemibrainr_team_drive Man page Source code
hemilineages Man page
hrn.ids Man page
id_okay Source code
id_selector Source code
info Man page
internal_assignments Source code
is.hxsurf Source code
is.issue Source code
is.nrowlength Source code
is64ToChar Source code
is_big Source code
is_big_dps Source code
java_xform_brain Source code
kc.ids Man page
kc.info Man page
lc.ids Man page
lc.info Man page
lengthnorm Source code
lhn.ids Man page
lineage_clones Man page Source code
lineage_converter Man page Source code
linked_nblast Source code
lm_lhns Man page Source code
lm_matched Man page
lm_matches Man page Source code
lm_matching Man page Source code
load_assign Source code
lockdown Source code
make_partner_scene Source code
make_top_partners_scene Source code
manually_assign_labels Man page Source code
manually_assign_labels.neuron Man page Source code
manually_assign_labels.neuronlist Man page Source code
matchColClasses Source code
matches_update Man page Source code
matching_user Source code
maxN Source code
maxout Source code
mbdf Source code
mbns Source code
mbon.ids Man page
mbon.info Man page
metadata_add_tags Man page Source code
mixed_points Man page Source code
mixed_points.neuron Source code
mixed_points.neuronlist Source code
mpn.ids Man page
must_be Source code
name2cbf Source code
nblast_big Source code
neuron_match_scanner Source code
neuron_method Source code
neurons_in_cbf Source code
ngl_add_colours2 Man page Source code
nlscan_split Man page
nt.cmat Man page
nullToNA Source code
odour_scenes Man page
orn.ids Man page
overlap_locality Source code
overlap_score_big Source code
overlap_score_delta Source code
paper_colours Man page
paste_coords Source code
pipeline_read_neurons Source code
plot3d_somas Man page Source code
plot3d_split Man page Source code
plot_inspirobot Man page Source code
pn.ids Man page
pn.info Man page
prepare_update Source code
primary_branchpoint Man page Source code
primary_branchpoint.neuron Man page Source code
primary_branchpoint.neuronlist Man page Source code
primary_dendrite_cable Man page Source code
primary_dendrite_cable.neuron Source code
primary_dendrite_cable.neuronlist Source code
primary_dendrite_endings Man page Source code
primary_dendrite_points Man page Source code
primary_dendrite_points.neuron Source code
primary_dendrite_points.neuronlist Source code
primary_neurite Man page Source code
primary_neurite.catmaidneuron Man page
primary_neurite.neuprintneuron Man page
primary_neurite.neuron Man page Source code
primary_neurite.neuronlist Man page Source code
primary_neurite_cable Man page Source code
primary_neurite_cable.neuron Source code
primary_neurite_cable.neuronlist Source code
primary_neurite_endings Man page Source code
primary_neurite_points Man page Source code
primary_neurite_points.neuron Source code
primary_neurite_points.neuronlist Source code
progress_natprogress Man page
projection_score.neuron Source code
projection_score.neuronlist Source code
prune_synapseless_branches Source code
prune_vertices.neuprintneuron Man page
purify Source code
randomwords Man page Source code
reexports Man page
regex_tab_names Source code
remote_upload Source code
remove_bad_synapses Man page Source code
remove_bad_synapses.neuron Source code
remove_bad_synapses.neuronlist Source code
remove_duplicates Source code
remove_unused_filehash Source code
replace_with_none Source code
reroot_from_selection Source code
reset3d Source code
rn.ids Man page
rn.info Man page
root_id_correct Source code
save_compressed_nblast_mat Source code
saveit Source code
say_encouragement Source code
say_hello Source code
scale_neurons Man page Source code
scale_neurons.neuron Source code
scale_neurons.neuronlist Source code
scale_points Source code
scale_points.shapelist Source code
segregation_index Source code
segregation_index.neuron Source code
segregation_index.neuronlist Source code
setup_splitcheck_sheet Source code
skeletor_batch Source code
soma_locations Source code
soma_side Man page Source code
soma_side.neuron Man page Source code
soma_side.neuronlist Man page Source code
sort_side Source code
splitcheck_phaseI Source code
splitcheck_phaseII Source code
splitcheck_phaseIII Source code
squeeze_dataframe Source code
squeeze_neuron Source code
squeeze_neuronlist Source code
standard_compartments Man page Source code
standard_lineages Man page Source code
standard_statuses Man page Source code
standard_transmitters Man page Source code
standard_workflow Man page Source code
standardise Man page
standardise_quality Source code
standardize Source code
strip_meshes Source code
subbbx Source code
suggest_soma Source code
suppress Source code
synapse_side_index Man page Source code
synapse_side_index.neuron Man page Source code
synapse_side_index.neuronlist Man page Source code
tmake_partner_scene Source code
tmake_toppartners_scene Source code
to_snake_case_gsheets Source code
ton.ids Man page
ton.info Man page
tondf Source code
tonns Source code
top_nt Source code
tract_cable Man page Source code
tract_cable.neuron Source code
tract_cable.neuronlist Source code
try_with_time_limit Source code
type_batches Source code
unlist_df Source code
unsure_cable Man page Source code
unsure_cable.neuron Source code
unsure_cable.neuronlist Source code
update.neuronlistfh Source code
update_gsheet Source code
update_internal_neuron_columns Source code
update_internal_neuron_columns.neuron Source code
update_internal_neuron_columns.neuronlist Source code
update_metdata Source code
upn.ids Man page
very_simple_connectivity Source code
vppn.ids Man page
which.consecutive Source code
write_matches Source code
write_somaupdate Source code
xform.mesh3d Source code
xform.shapelist Source code
xform_brain.mesh3d Source code
xform_brain.shapelist Source code
xform_brain_parallel Source code
natverse/hemibrainr documentation built on July 17, 2025, 4:24 a.m.

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