fullseye

tree_sholl — GRAPH tree op

• データ種: table → table
• 呼び出し: import fullseye as fs; fs.ledger.tree_sholl(tree, radii=None, n_radii=50, plane=None, center=None) (実装を直接呼ぶなら import treemorph; treemorph.tree_sholl(tree, radii=None, n_radii=50, plane=None, center=None)、台帳から引くなら opsgraph.get("tree_sholl"))

使い方

Sholl analysis: segments crossing spheres (3-D) or circles (a projection) around the root.

radii are the shell radii (ascending, positive); if omitted, n_radii shells at the mid-points of equal steps up to the largest distance from the centre (never exactly on a node’s distance). A shell passing exactly through a node is ambiguous under rounding — a rotation may move that node by one ulp to either side. plane=None measures in 3-D; plane="xy" | "xz" | "yz" drops the third axis first — what a single image sees. center defaults to the root position.

A segment (parent-child) crosses radius r when its end points lie strictly on opposite sides of r (the endpoint rule). Returns radii, crossings (int array), max_crossings, radius_at_max and integral — the exact area under the whole continuous Sholl curve, computed from the segments’ intervals (independent of where the shells are placed).

Identities: in 3-D the crossings are invariant, integer for integer, under any rotation about the centre; and integral equals sum |d_child - d_parent| (the tests also check that the mid-point sum of the sampled crossings converges to it — a second implementation).

Raises ValueError: not a tree table; plane not one of None/xy/xz/yz; radii not 1-D, not finite, not positive or not strictly increasing; n_radii < 1.

参考(サンプルデータ・文献)

• サンプルデータ カタログ(DL URL / ライセンス) — 2-D は skimage.data(BSD/public)+ 合成、3-D は実データ源(Stanford/PDS 等)の DL URL。
• 演算子の来歴・参考文献 — この op 族の元になった研究/手法の出典。
• アルゴリズムの正典(著者・年)と用途は上記ファミリ使い方ガイドに記載。

実行できる例(この op を実際に呼ぶ検証済みサンプル)

• 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

型が繋がる次の op(table を入力に取れる)

graph_edge_consensus · graph_core_persistence · tree_morphometry · tree_run_length

同カテゴリ(tree)

tree_from_swc · tree_morphometry · tree_run_length

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Provenance: treemorph.py — GRAPH operator registry. この per-op ノートは tools/opdocs.py md が自動生成(手編集しない)。

© 2026 Kazufumi Furuse — Fullseye operator documentation. Licensed under Apache-2.0.

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