cytoscape/dist/cytoscape.min.js

Graph theory (a.k.a. network) library for analysis and visualisation

/**
 * Copyright (c) 2016-2022, The Cytoscape Consortium.
 *
 * Permission is hereby granted, free of charge, to any person obtaining a copy of
 * this software and associated documentation files (the “Software”), to deal in
 * the Software without restriction, including without limitation the rights to
 * use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies
 * of the Software, and to permit persons to whom the Software is furnished to do
 * so, subject to the following conditions:
 *
 * The above copyright notice and this permission notice shall be included in all
 * copies or substantial portions of the Software.
 *
 * THE SOFTWARE IS PROVIDED “AS IS”, WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
 * IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
 * FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
 * AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
 * LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
 * OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
 * SOFTWARE.
 */

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t=nn(e),n=t.dampingFactor,r=t.precision,i=t.iterations,a=t.weight,o=this._private.cy,s=this.byGroup(),l=s.nodes,u=s.edges,c=l.length,d=c*c,h=u.length,p=new Array(d),f=new Array(c),g=(1-n)/c,v=0;v<c;v++){for(var y=0;y<c;y++){p[v*c+y]=0}f[v]=0}for(var m=0;m<h;m++){var b=u[m],x=b.data("source"),w=b.data("target");if(x!==w){var E=l.indexOfId(x),k=l.indexOfId(w),C=a(b);p[k*c+E]+=C,f[E]+=C}}for(var S=1/c+g,P=0;P<c;P++)if(0===f[P])for(var D=0;D<c;D++){p[D*c+P]=S}else for(var T=0;T<c;T++){var _=T*c+P;p[_]=p[_]/f[P]+g}for(var M,B=new Array(c),N=new Array(c),z=0;z<c;z++)B[z]=1;for(var I=0;I<i;I++){for(var A=0;A<c;A++)N[A]=0;for(var L=0;L<c;L++)for(var O=0;O<c;O++){var R=L*c+O;N[L]+=p[R]*B[O]}kt(N),M=B,B=N,N=M;for(var V=0,F=0;F<c;F++){var j=M[F]-B[F];V+=j*j}if(V<r)break}return{rank:function(e){return e=o.collection(e)[0],B[l.indexOf(e)]}}}},an=Xe({root:null,weight:function(e){return 1},directed:!1,alpha:0}),on={degreeCentralityNormalized:function(e){e=an(e);var 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a,o=0,s=1/0,l=i.attributes,u=function(e,t){return _n(i.distance,l.length,(function(t){return l[t](e)}),(function(e){return l[e](t)}),e,t)},c=0;c<e.length;c++){var d=e[c].key,h=n[d][r[d]];h<s&&(o=d,s=h)}if("threshold"===i.mode&&s>=i.threshold||"dendrogram"===i.mode&&1===e.length)return!1;var p,f=t[o],g=t[r[o]];p="dendrogram"===i.mode?{left:f,right:g,key:f.key}:{value:f.value.concat(g.value),key:f.key},e[f.index]=p,e.splice(g.index,1),t[f.key]=p;for(var v=0;v<e.length;v++){var y=e[v];f.key===y.key?a=1/0:"min"===i.linkage?(a=n[f.key][y.key],n[f.key][y.key]>n[g.key][y.key]&&(a=n[g.key][y.key])):"max"===i.linkage?(a=n[f.key][y.key],n[f.key][y.key]<n[g.key][y.key]&&(a=n[g.key][y.key])):a="mean"===i.linkage?(n[f.key][y.key]*f.size+n[g.key][y.key]*g.size)/(f.size+g.size):"dendrogram"===i.mode?u(y.value,f.value):u(y.value[0],f.value[0]),n[f.key][y.key]=n[y.key][f.key]=a}for(var m=0;m<e.length;m++){var b=e[m].key;if(r[b]===f.key||r[b]===g.key){for(var x=b,w=0;w<e.length;w++){var 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