tree op• Data kinds: text → table
• Call: import fullseye as fs; fs.ledger.tree_from_swc(swc) (to call the implementation directly, import treemorph; treemorph.tree_from_swc(swc); from the registry, opsgraph.get("tree_from_swc"))
Parse an SWC text (or a path to a `.swc` file) into a checked tree table.
Returns a dict with `id (n,), type (n,), xyz (n, 3), radius` (n,),
`parent_index (n,; -1 for the root, otherwise the row of the parent) and root`
(row of the root). Rows keep the file order. Comment lines (`#`) and blank lines
are skipped.
Raises `ValueError`: not a string; a data line with fewer than 7 fields or
unparsable numbers; no nodes; duplicate ids; zero or more than one root
(parent == -1); a parent id that is not smaller than its child's; a parent id that
does not exist; non-finite coordinates or radius; a negative radius; more than
`MAX_TREE_NODES` nodes.
• Sample-data catalog (download URLs / licences) — 2-D uses skimage.data (BSD/public domain) plus synthetic images; 3-D lists download URLs for real data sources (Stanford, PDS, …).
• Operator provenance and references — the sources of the research/methods this op family came from.
• The canonical algorithm (author, year) and its uses are named in the family usage guide above.
• poc_skeleton_run_length_vs_voi — py -3.11 examples/poc_skeleton_run_length_vs_voi.py
• poc_swc_tree_truth — py -3.11 examples/poc_swc_tree_truth.py
• poc_worm_neurites_grow — py -3.11 examples/poc_worm_neurites_grow.py
• poc_worm_synapses_vs_neurites — py -3.11 examples/poc_worm_synapses_vs_neurites.py
table as input)graph_edge_consensus · graph_core_persistence · tree_morphometry · tree_sholl · tree_run_length
tree)tree_morphometry · tree_sholl · tree_run_length
*Provenance: treemorph.py — GRAPH operator registry. This per-op note is generated by tools/opdocs.py md (do not hand-edit).*
© 2026 Kazufumi Furuse — Fullseye operator documentation. Licensed under Apache-2.0.