@graphty/algorithms 1.6.0 → 1.7.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/README.md +13 -0
- package/dist/algorithms.js +33 -23
- package/dist/algorithms.js.map +1 -1
- package/dist/src/algorithms/community/girvan-newman.d.ts.map +1 -1
- package/dist/src/algorithms/community/girvan-newman.js +10 -7
- package/dist/src/algorithms/community/girvan-newman.js.map +1 -1
- package/dist/src/clustering/mcl.d.ts.map +1 -1
- package/dist/src/clustering/mcl.js +33 -21
- package/dist/src/clustering/mcl.js.map +1 -1
- package/dist/tsconfig.tsbuildinfo +1 -1
- package/package.json +32 -4
- package/src/algorithms/community/girvan-newman.ts +19 -8
- package/src/clustering/mcl.ts +38 -24
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-
{"version":3,"file":"girvan-newman.d.ts","sourceRoot":"","sources":["../../../../src/algorithms/community/girvan-newman.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,qBAAqB,CAAC;AAC5C,OAAO,KAAK,EAAE,eAAe,EAAmB,mBAAmB,EAAU,MAAM,sBAAsB,CAAC;AAG1G;;;;;;;;;;;;;;;;;GAiBG;AACH,wBAAgB,YAAY,CAAC,KAAK,EAAE,KAAK,EAAE,OAAO,GAAE,mBAAwB,GAAG,eAAe,EAAE,
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1
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{"version":3,"file":"girvan-newman.d.ts","sourceRoot":"","sources":["../../../../src/algorithms/community/girvan-newman.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,MAAM,qBAAqB,CAAC;AAC5C,OAAO,KAAK,EAAE,eAAe,EAAmB,mBAAmB,EAAU,MAAM,sBAAsB,CAAC;AAG1G;;;;;;;;;;;;;;;;;GAiBG;AACH,wBAAgB,YAAY,CAAC,KAAK,EAAE,KAAK,EAAE,OAAO,GAAE,mBAAwB,GAAG,eAAe,EAAE,CAsE/F"}
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@@ -33,7 +33,7 @@ export function girvanNewman(graph, options = {}) {
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while (Array.from(workingGraph.edges()).length > 0 && iterations < maxIterations) {
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iterations++;
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// Calculate edge betweenness centrality
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const edgeBetweenness = calculateEdgeBetweenness(workingGraph);
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const { betweenness: edgeBetweenness, edgeEndpoints } = calculateEdgeBetweenness(workingGraph);
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if (edgeBetweenness.size === 0) {
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break;
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}
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@@ -42,9 +42,10 @@ export function girvanNewman(graph, options = {}) {
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const edgesToRemove = [];
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for (const [edgeKey, centrality] of edgeBetweenness) {
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if (Math.abs(centrality - maxBetweenness) < 1e-10) {
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// Use original edge endpoints to preserve node ID types (number vs string)
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const endpoints = edgeEndpoints.get(edgeKey);
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if (endpoints) {
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edgesToRemove.push(endpoints);
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}
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}
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}
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@@ -79,14 +80,16 @@ export function girvanNewman(graph, options = {}) {
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* Edge betweenness is the fraction of shortest paths that pass through the edge.
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* We adapt node betweenness centrality calculation to work with edges.
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* @param graph - The input graph to analyze
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* @returns
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* @returns Object with betweenness map and edge endpoints map (preserving original ID types)
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*/
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function calculateEdgeBetweenness(graph) {
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const edgeBetweenness = new Map();
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const edgeEndpoints = new Map();
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// Initialize all edges with 0 betweenness and store original endpoints
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for (const edge of graph.edges()) {
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const edgeKey = getEdgeKey(edge.source, edge.target);
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edgeBetweenness.set(edgeKey, 0);
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edgeEndpoints.set(edgeKey, { source: edge.source, target: edge.target });
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}
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// For each node as source, calculate shortest paths and accumulate edge betweenness
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for (const sourceNode of graph.nodes()) {
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@@ -148,7 +151,7 @@ function calculateEdgeBetweenness(graph) {
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edgeBetweenness.set(edgeKey, betweenness / 2);
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}
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}
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return edgeBetweenness;
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return { betweenness: edgeBetweenness, edgeEndpoints };
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}
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/**
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* Find all shortest paths from a source node using optimized BFS
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@@ -1 +1 @@
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1
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-
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+
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|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"mcl.d.ts","sourceRoot":"","sources":["../../../src/clustering/mcl.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,kBAAkB,CAAC;AAC9C,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,mBAAmB,CAAC;AAEhD;;;;;;;;;;GAUG;AAEH,MAAM,WAAW,UAAU;IACvB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,gBAAgB,CAAC,EAAE,MAAM,CAAC;IAC1B,SAAS,CAAC,EAAE,OAAO,CAAC;CACvB;AAED,MAAM,WAAW,SAAS;IACtB,WAAW,EAAE,MAAM,EAAE,EAAE,CAAC;IACxB,UAAU,EAAE,GAAG,CAAC,MAAM,CAAC,CAAC;IACxB,UAAU,EAAE,MAAM,CAAC;IACnB,SAAS,EAAE,OAAO,CAAC;CACtB;AAED;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,KAAK,EAAE,KAAK,EAAE,OAAO,GAAE,UAAe,GAAG,SAAS,CAyDlF;
|
|
1
|
+
{"version":3,"file":"mcl.d.ts","sourceRoot":"","sources":["../../../src/clustering/mcl.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,KAAK,EAAE,MAAM,kBAAkB,CAAC;AAC9C,OAAO,KAAK,EAAE,MAAM,EAAE,MAAM,mBAAmB,CAAC;AAEhD;;;;;;;;;;GAUG;AAEH,MAAM,WAAW,UAAU;IACvB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,aAAa,CAAC,EAAE,MAAM,CAAC;IACvB,SAAS,CAAC,EAAE,MAAM,CAAC;IACnB,gBAAgB,CAAC,EAAE,MAAM,CAAC;IAC1B,SAAS,CAAC,EAAE,OAAO,CAAC;CACvB;AAED,MAAM,WAAW,SAAS;IACtB,WAAW,EAAE,MAAM,EAAE,EAAE,CAAC;IACxB,UAAU,EAAE,GAAG,CAAC,MAAM,CAAC,CAAC;IACxB,UAAU,EAAE,MAAM,CAAC;IACnB,SAAS,EAAE,OAAO,CAAC;CACtB;AAED;;;;;GAKG;AACH,wBAAgB,gBAAgB,CAAC,KAAK,EAAE,KAAK,EAAE,OAAO,GAAE,UAAe,GAAG,SAAS,CAyDlF;AA8WD;;;;;GAKG;AACH,wBAAgB,sBAAsB,CAAC,KAAK,EAAE,KAAK,EAAE,WAAW,EAAE,MAAM,EAAE,EAAE,GAAG,MAAM,CA+BpF"}
|
|
@@ -59,7 +59,7 @@ function buildTransitionMatrix(graph, nodeIds, selfLoops) {
|
|
|
59
59
|
// Fill adjacency values
|
|
60
60
|
for (let i = 0; i < n; i++) {
|
|
61
61
|
const nodeId = nodeIds[i];
|
|
62
|
-
if (
|
|
62
|
+
if (nodeId === undefined) {
|
|
63
63
|
continue;
|
|
64
64
|
}
|
|
65
65
|
const neighbors = graph.neighbors(nodeId);
|
|
@@ -301,40 +301,52 @@ function extractClusters(matrix, nodeIds) {
|
|
|
301
301
|
attractors.add(nodeId);
|
|
302
302
|
}
|
|
303
303
|
}
|
|
304
|
-
// Assign nodes to clusters based on
|
|
305
|
-
|
|
304
|
+
// Assign nodes (columns) to clusters based on which attractor (row) they flow to
|
|
305
|
+
// After MCL convergence, matrix[i][j] > 0 means node j belongs to attractor i's cluster
|
|
306
|
+
const attractorToCommunity = new Map();
|
|
306
307
|
for (let j = 0; j < n; j++) {
|
|
307
|
-
// Find
|
|
308
|
-
|
|
308
|
+
// Find the attractor for this column (node j)
|
|
309
|
+
// Look for the row with the highest non-zero value in column j
|
|
310
|
+
let maxVal = 0;
|
|
311
|
+
let attractorRow = -1;
|
|
309
312
|
for (let i = 0; i < n; i++) {
|
|
310
313
|
const matrixRow = matrix[i];
|
|
311
314
|
if (!matrixRow) {
|
|
312
315
|
continue;
|
|
313
316
|
}
|
|
314
317
|
const val = matrixRow[j];
|
|
315
|
-
if (val !== undefined && val >
|
|
316
|
-
|
|
317
|
-
|
|
318
|
+
if (val !== undefined && val > maxVal) {
|
|
319
|
+
maxVal = val;
|
|
320
|
+
attractorRow = i;
|
|
318
321
|
}
|
|
319
322
|
}
|
|
320
|
-
if (
|
|
321
|
-
|
|
322
|
-
|
|
323
|
-
|
|
324
|
-
|
|
325
|
-
|
|
326
|
-
|
|
327
|
-
|
|
323
|
+
if (attractorRow >= 0) {
|
|
324
|
+
// Node j belongs to the cluster of attractor at row attractorRow
|
|
325
|
+
let community = attractorToCommunity.get(attractorRow);
|
|
326
|
+
if (!community) {
|
|
327
|
+
community = [];
|
|
328
|
+
attractorToCommunity.set(attractorRow, community);
|
|
329
|
+
}
|
|
330
|
+
community.push(j);
|
|
331
|
+
nodeToCluster.set(j, attractorRow);
|
|
328
332
|
}
|
|
329
333
|
}
|
|
330
|
-
//
|
|
331
|
-
for (
|
|
332
|
-
|
|
333
|
-
|
|
334
|
+
// Convert attractor communities to node ID arrays
|
|
335
|
+
for (const [, memberIndices] of attractorToCommunity) {
|
|
336
|
+
communities.push(memberIndices
|
|
337
|
+
.map((idx) => {
|
|
338
|
+
const nodeId = nodeIds[idx];
|
|
339
|
+
return nodeId;
|
|
340
|
+
})
|
|
341
|
+
.filter((node) => node !== undefined));
|
|
342
|
+
}
|
|
343
|
+
// Handle isolated nodes (nodes with all-zero columns)
|
|
344
|
+
for (let j = 0; j < n; j++) {
|
|
345
|
+
if (!nodeToCluster.has(j)) {
|
|
346
|
+
const nodeId = nodeIds[j];
|
|
334
347
|
if (nodeId !== undefined) {
|
|
335
348
|
communities.push([nodeId]);
|
|
336
349
|
}
|
|
337
|
-
nodeToCluster.set(i, clusterIndex++);
|
|
338
350
|
}
|
|
339
351
|
}
|
|
340
352
|
return { communities, attractors };
|
|
@@ -1 +1 @@
|
|
|
1
|
-
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