-
Notifications
You must be signed in to change notification settings - Fork 4
/
_pkgdown.yml
114 lines (113 loc) · 2.92 KB
/
_pkgdown.yml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
destination: docs
reference:
- title: Package Help
desc: Provides an overview of the package
contents:
- "`hemibrainr-package`"
- title: General skeleton functions
desc: ~
contents:
- '`hemibrain_read_neurons`'
- '`hemibrain_download_neurons`'
- '`primary_neurite`'
- '`hemibrain_skeleton_check`'
- '`hemibrain_overlap_locality`'
- '`prune_vertices.neuprintneuron`'
- '`hemibrain_clean_skeleton`'
- title: Neuronal compartments (axons, dendrites)
desc: ~
contents:
- '`flow_centrality`'
- '`plot3d_split`'
- '`axonic_points`'
- '`hemibrain_flow_centrality`'
- '`hemibrain_splitpoints`'
- '`hemibrain_use_splitpoints`'
- '`hemibrain_compartment_metrics`'
- '`hemibrain_metrics`'
- '`hemibrain_precomputed_splitpoints`'
- '`manually_assign_labels`'
- title: Somas and lineages
desc: ~
contents:
- 'hemibrain_somas'
- '`hemibrain_reroot`'
- 'hemilineages'
- title: Synapses and neuron and ROI meshes
desc: ~
contents:
- '`hemibrain_extract_synapses`'
- '`hemibrain_remove_bad_synapses`'
- '`hemibrain_neuron_meshes`'
- '`hemibrain_roi_meshes`'
- 'hemibrain.surf'
- 'hemibrain_al.surf'
- title: Connectivity
desc: ~
contents:
- 'grouped_adjacency'
- 'hemibrain_connectivity_similarity'
- title: Annotations
desc: ~
contents:
- 'hemibrain_get_meta'
- '`class2ids`'
- '`classed.ids`'
- '`glomerulus`'
- '`standard_transmitters`'
- 'hemibrain_cbf'
- 'fafb_hemibrain_annotate'
- 'hemibrain_olfactory_layers'
- 'info'
- title: Neuron matching across datasets
desc: >
Includes functions for loading a range of different neuronal datasets and
assigning matches between related neurons.
contents:
- 'hemibrain_matches'
- 'hemibrain_matched'
- 'matches_update'
- 'hemibrain_task_update'
- 'hemibrain_type_plot'
- 'hemibrain_cut'
- title: Utility
desc: ~
contents:
- 'hemibrain_colours'
- 'add_field'
- 'add_Label'
- 'hemibrain_settags'
- 'plot_inspirobot'
- 'hemibrain_view'
- 'paper_colours'
- title: R annotation pipelines
desc: ~
contents:
- 'hemibrain_adjust_saved_somas'
- 'hemibrain_matching'
- 'fafb_matching'
- 'LR_matching'
- title: Set hemibrainr to work with google drive
desc: ~
contents:
- 'hemibrainr_set_drive'
- title: Access hemibrain google drive data
desc: ~
contents:
- 'hemibrainr_googledrive_data'
- 'hemibrain_nblast'
- title: Access flywire google drive data
desc: ~
contents:
- 'flywire_neurons'
- 'flywire_googledrive_data'
- 'flywire_ids_update'
- '`flywire_basics`'
- title: Access light-level google drive data
desc: ~
contents:
- 'flycircuit_neurons'
- title: Manipulate googlesheets for neuron matching
desc: ~
contents:
- 'hemibrain_add_made_matches'