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NAMESPACE
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# Generated by roxygen2: do not edit by hand
S3method(arbour.clusters,neuron)
S3method(arbour.clusters,neuronlist)
S3method(arbour_cable,catmaidneuron)
S3method(arbour_cable,neuron)
S3method(arbour_cable,neuronlist)
S3method(arbours,neuron)
S3method(arbours,neuronlist)
S3method(as.mesh3d,kde)
S3method(assign.connector.info,neuron)
S3method(assign.connector.info,neuronlist)
S3method(assign_strahler,neuron)
S3method(assign_strahler,neuronlist)
S3method(axonic_cable,catmaidneuron)
S3method(axonic_cable,neuronlist)
S3method(cluster_synapses_within_skeleton,neuron)
S3method(cluster_synapses_within_skeleton,neuronlist)
S3method(dendritic_cable,catmaidneuron)
S3method(dendritic_cable,neuron)
S3method(dendritic_cable,neuronlist)
S3method(distance.from.first.branchpoint,neuron)
S3method(distance.from.first.branchpoint,neuronlist)
S3method(flow.centrality,neuron)
S3method(flow.centrality,neuronlist)
S3method(get.synapses,neuron)
S3method(get.synapses,neuronlist)
S3method(in_neuropil,neuron)
S3method(in_neuropil,neuronlist)
S3method(inside_neuropils,neuron)
S3method(inside_neuropils,neuronlist)
S3method(manually_assign_axon_dendrite,neuron)
S3method(manually_assign_axon_dendrite,neuronlist)
S3method(mark.microtubules,neuron)
S3method(mark.microtubules,neuronlist)
S3method(napplyTransform,neuron)
S3method(napplyTransform,neuronlist)
S3method(neurites,neuron)
S3method(neurites,neuronlist)
S3method(plot3d,split)
S3method(primary.neurite,neuron)
S3method(primary.neurite,neuronlist)
S3method(primary_dendrite_cable,catmaidneuron)
S3method(primary_dendrite_cable,neuron)
S3method(primary_dendrite_cable,neuronlist)
S3method(prune,catmaidneuron)
S3method(prune_by_tag,catmaidneuron)
S3method(prune_by_tag,neuron)
S3method(prune_by_tag,neuronlist)
S3method(prune_in_volume,neuron)
S3method(prune_in_volume,neuronlist)
S3method(prune_microtubules,neuron)
S3method(prune_microtubules,neuronlist)
S3method(prune_online,neuron)
S3method(prune_online,neuronlist)
S3method(resample,catmaidneuron)
S3method(resample,catmaidneuronlist)
S3method(resample,neuronlist)
S3method(soma,neuron)
S3method(soma,neuronlist)
S3method(somaid,neuron)
S3method(somaid,neuronlist)
S3method(somapos,neuron)
S3method(somapos,neuronlist)
S3method(starting.neurite,neuron)
S3method(starting.neurite,neuronlist)
S3method(unsure_cable,catmaidneuron)
S3method(unsure_cable,neuron)
S3method(unsure_cable,neuronlist)
export(WriteVTKalphashape)
export(arbour.clusters)
export(arbour_cable)
export(arbours)
export(ashape2mesh3d)
export(assign.connector.info)
export(assign_cable.polarity)
export(assign_lh_neuron)
export(assign_strahler)
export(assignside)
export(average.tracts)
export(axonal_endings)
export(axonic_cable)
export(axonic_endings)
export(axonic_points)
export(catmaid_annotate_partners)
export(catmaid_connector_nodes)
export(catmaid_controlled_upload)
export(catmaid_delete_connectors)
export(catmaid_delete_neuron)
export(catmaid_delete_neurons)
export(catmaid_duplicated)
export(catmaid_find_likely_merge)
export(catmaid_get_neuronid)
export(catmaid_get_server)
export(catmaid_get_tag)
export(catmaid_interactive_join)
export(catmaid_interactive_name_transfer)
export(catmaid_join_skeletons)
export(catmaid_link_connectors)
export(catmaid_lock_neurons)
export(catmaid_node_time)
export(catmaid_set_meta_annotations)
export(catmaid_skeletons_in_bbx)
export(catmaid_unlock_neurons)
export(catmaid_update_radius)
export(catmaid_upload_neurons)
export(cluster_synapses_within_skeleton)
export(clusterbysynapses)
export(combine.alphashape)
export(connectivity_matrix)
export(connectivity_similarity)
export(connectivity_similarity_distance)
export(connectivity_similarity_matrix)
export(connector_URL)
export(correctsoma)
export(create_skeleton_from_nrrd)
export(create_tracing_samplesheet)
export(dendritic_cable)
export(dendritic_endings)
export(dendritic_points)
export(deselect_neurons)
export(distance.from.first.branchpoint)
export(downstream.deletion.test)
export(fafb_frags_ids)
export(fafb_frags_skeletons)
export(fafb_neuron_details)
export(fafb_seg)
export(fafb_seg_conn)
export(fafb_seg_hitlist)
export(fafb_seg_tracing_list)
export(fafb_segs_stitch_volumes)
export(fafbseg_get_node_count)
export(fafbseg_transfer_connectors)
export(fafbseg_transfer_tags)
export(fafbseg_update_node_radii)
export(flow.centrality)
export(get.hxsurf)
export(get.skeleton.from.flycircuit)
export(get.synapses)
export(get_connected_skeletons)
export(in_neuropil)
export(inside_neuropils)
export(label_neuron.class)
export(local_conn)
export(make.anatomical.model)
export(make.mirror.transform)
export(manually_assign_axon_dendrite)
export(map_fafbsegs_to_neuron)
export(mark.microtubules)
export(microtubules.errors)
export(mixed_points)
export(napplyTransform)
export(nblast_bothways)
export(neurites)
export(neuron.heatmap)
export(neurons.inside)
export(neuronvolume3d)
export(node.contribution.to.skeletons)
export(open_l1)
export(overlap.connectivity.matrix)
export(points_in_neuropil)
export(pointsinsidemesh)
export(primary.neurite)
export(primary_dendrite_cable)
export(primary_dendrite_endings)
export(primary_dendrite_points)
export(prune_by_tag)
export(prune_distal)
export(prune_in_volume)
export(prune_microtubules)
export(prune_online)
export(prune_strahler.catmaidneuron)
export(prune_vertices.catmaidneuron)
export(read.neurons.catmaid.meta)
export(read.neurons.fafbseg)
export(rescue.dps)
export(reverse.name.side)
export(scan4matching)
export(scan_lh_matches)
export(seebroken3d)
export(seesplit3d)
export(segments_ranked_post)
export(segments_ranked_pre)
export(select_neurons)
export(select_points)
export(set_segmentation_location)
export(shift.neurons)
export(sholl_data)
export(skeleton_connectivity_matrix)
export(soma)
export(somaid)
export(somapos)
export(splitscan)
export(starting.neurite)
export(subtree)
export(synapse.contribution.to.skeletons)
export(synapsecolours.neuron)
export(tracer.neuron.stats)
export(tracer.plot)
export(tracer.treenodes.plot)
export(transform3dalphashape)
export(unsure_cable)
export(update_names)
export(update_neurons)
export(update_single_samplesheet)
export(update_tracing_samplesheets)
export(visualise.microtubules)
export(write.spin.split.swc)
export(write.spin.swc)
import(alphashape3d)
import(catmaid)
import(nat)
import(nat.flybrains)
import(nat.nblast)
import(rgl)
importFrom(Morpho,applyTransform)
importFrom(Morpho,crossProduct)
importFrom(dplyr,arrange_)
importFrom(dplyr,bind_rows)
importFrom(dplyr,filter)
importFrom(dplyr,mutate_)
importFrom(grDevices,colorRampPalette)
importFrom(grDevices,rainbow)
importFrom(graphics,legend)
importFrom(graphics,plot)
importFrom(graphics,plot.new)
importFrom(nabor,knn)
importFrom(nat,prune)
importFrom(nat,prune_strahler)
importFrom(nat,prune_vertices)
importFrom(nat,resample)
importFrom(nat.templatebrains,xform_brain)
importFrom(stats,aggregate)
importFrom(stats,complete.cases)
importFrom(stats,median)
importFrom(stats,rnorm)
importFrom(stats,runif)
importFrom(stats,sd)
importFrom(utils,browseURL)
importFrom(utils,read.csv)
importFrom(utils,read.table)
importFrom(utils,write.table)