SYMBOL INDEX (200 symbols across 13 files)

FILE: docs/dynsections.js
  function toggleVisibility (line 1) | function toggleVisibility(linkObj)
  function updateStripes (line 22) | function updateStripes()
  function toggleLevel (line 27) | function toggleLevel(level)
  function toggleFolder (line 48) | function toggleFolder(id)
  function toggleInherit (line 84) | function toggleInherit(id)

FILE: docs/jquery.js
  function b0 (line 16) | function b0(b3,b4){return new b0.fn.init(b3,b4)}
  function bw (line 16) | function bw(){if(bF.isReady){return}try{av.documentElement.doScroll("lef...
  function X (line 16) | function X(e){var bv=a2[e]={},bw,bx;e=e.split(/\s+/);for(bw=0,bx=e.lengt...
  function bD (line 16) | function bD(bF){return function(bG){bx[bF]=arguments.length>1?aJ.call(ar...
  function bz (line 16) | function bz(bF){return function(bG){bB[bF]=arguments.length>1?aJ.call(ar...
  function a5 (line 17) | function a5(bx,bw,by){if(by===L&&bx.nodeType===1){var bv="data-"+bw.repl...
  function S (line 17) | function S(bv){for(var e in bv){if(e==="data"&&b.isEmptyObject(bv[e])){c...
  function bi (line 17) | function bi(by,bx,bA){var bw=bx+"defer",bv=bx+"queue",e=bx+"mark",bz=b._...
  function bE (line 17) | function bE(){if(!(--bB)){e.resolveWith(bv,[bv])}}
  function bk (line 18) | function bk(){return false}
  function i (line 18) | function i(){return true}
  function bv (line 27) | function bv(bR,bW,bV,bZ,bX,bY){for(var bT=0,bS=bZ.length;bT<bS;bT++){var...
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  function C (line 27) | function C(e){return !e||!e.parentNode||e.parentNode.nodeType===11}
  function aG (line 27) | function aG(bx,bw,e){bw=bw||0;if(b.isFunction(bw)){return b.grep(bx,func...
  function a (line 27) | function a(e){var bw=aR.split("|"),bv=e.createDocumentFragment();if(bv.c...
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  function E (line 28) | function E(e){var bv=(e.nodeName||"").toLowerCase();if(bv==="input"){az(...
  function al (line 28) | function al(e){var bv=av.createElement("div");ac.appendChild(bv);bv.inne...
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  function f (line 29) | function f(e){return function(by,bA){if(typeof by!=="string"){bA=by;by="...
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  function am (line 29) | function am(bw,bx){var bv,e,by=b.ajaxSettings.flatOptions||{};for(bv in ...
  function bF (line 29) | function bF(bZ,bU,b0,bW){if(bA===2){return}bA=2;if(bE){clearTimeout(bE)}...
  function v (line 29) | function v(bw,by,bv,bx){if(b.isArray(by)){b.each(by,function(bA,bz){if(b...
  function bj (line 29) | function bj(bD,bC,bz){var bv=bD.contents,bB=bD.dataTypes,bw=bD.responseF...
  function G (line 29) | function G(bH,bz){if(bH.dataFilter){bz=bH.dataFilter(bz,bH.dataType)}var...
  function aL (line 29) | function aL(){try{return new bb.XMLHttpRequest()}catch(bv){}}
  function aj (line 29) | function aj(){try{return new bb.ActiveXObject("Microsoft.XMLHTTP")}catch...
  function bv (line 30) | function bv(){if(e.queue===false){b._mark(this)}var bE=b.extend({},e),bK...
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  function bh (line 30) | function bh(){setTimeout(at,0);return(a4=b.now())}
  function at (line 30) | function at(){a4=L}
  function a0 (line 30) | function a0(bv,e){var bw={};b.each(aH.concat.apply([],aH.slice(0,e)),fun...
  function bv (line 30) | function bv(bA){return e.step(bA)}
  function x (line 30) | function x(bx){if(!Q[bx]){var e=av.body,bv=b("<"+bx+">").appendTo(e),bw=...
  function aK (line 30) | function aK(e){return b.isWindow(e)?e:e.nodeType===9?e.defaultView||e.pa...

FILE: docs/search/search.js
  function convertToId (line 24) | function convertToId(search)
  function getXPos (line 47) | function getXPos(item)
  function getYPos (line 61) | function getYPos(item)
  function SearchBox (line 82) | function SearchBox(name, resultsPath, inFrame, label)
  function SearchResults (line 427) | function SearchResults(name)
  function setKeyActions (line 732) | function setKeyActions(elem,action)
  function setClassAttr (line 739) | function setClassAttr(elem,attr)
  function createResults (line 745) | function createResults()

FILE: pathpy/HigherOrderNetwork.py
  class EmptySCCError (line 41) | class EmptySCCError(Exception):
  class HigherOrderNetwork (line 49) | class HigherOrderNetwork:
    method __init__ (line 56) | def __init__(self, paths, k=1, separator='-', nullModel=False, method=...
    method vcount (line 258) | def vcount(self):
    method ecount (line 263) | def ecount(self):
    method totalEdgeWeight (line 268) | def totalEdgeWeight(self):
    method HigherOrderNodeToPath (line 276) | def HigherOrderNodeToPath(self, node):
    method pathToHigherOrderNodes (line 289) | def pathToHigherOrderNodes(self, path, k=None):
    method getNodeNameMap (line 326) | def getNodeNameMap(self):
    method getDoF (line 338) | def getDoF(self, assumption="paths"):
    method getDistanceMatrix (line 362) | def getDistanceMatrix(self):
    method getShortestPaths (line 389) | def getShortestPaths(self):
    method getDistanceMatrixFirstOrder (line 428) | def getDistanceMatrixFirstOrder(self):
    method ClosenessCentrality (line 449) | def ClosenessCentrality(self):
    method EvCent (line 479) | def EvCent(self, projection='scaled', includeSubPaths=True):
    method PageRank (line 538) | def PageRank(self, alpha=0.85, maxIterations=100, convergenceThres=1.0...
    method HigherOrderPathToFirstOrder (line 633) | def HigherOrderPathToFirstOrder(self, path):
    method BetweennessCentrality (line 650) | def BetweennessCentrality(self, normalized=False):
    method reduceToGCC (line 707) | def reduceToGCC(self):
    method summary (line 777) | def summary(self):
    method __str__ (line 791) | def __str__(self):
    method degrees (line 799) | def degrees(self, includeSubPaths=True, weighted=True, mode="OUT"):
    method getAdjacencyMatrix (line 826) | def getAdjacencyMatrix(self, includeSubPaths = True, weighted = True, ...
    method getTransitionMatrix (line 868) | def getTransitionMatrix(self, includeSubPaths=True):
    method getLeadingEigenvector (line 908) | def getLeadingEigenvector(A, normalized=True, lanczosVecs = 15, maxite...
    method getLaplacianMatrix (line 935) | def getLaplacianMatrix(self, includeSubPaths=True):
    method getEigenValueGap (line 949) | def getEigenValueGap(self, includeSubPaths=True, lanczosVecs = 15, max...
    method getFiedlerVectorSparse (line 977) | def getFiedlerVectorSparse(self, normalized = True, lanczosVecs = 15, ...
    method getFiedlerVectorDense (line 1023) | def getFiedlerVectorDense(self):
    method getAlgebraicConnectivity (line 1040) | def getAlgebraicConnectivity(self, lanczosVecs = 15, maxiter = 20):

FILE: pathpy/Log.py
  class Severity (line 32) | class Severity(enum.IntEnum):
  class Log (line 54) | class Log:
    method setMinSeverity (line 67) | def setMinSeverity(severity):
    method setOutputStream (line 78) | def setOutputStream(stream):
    method add (line 87) | def add(msg, severity=Severity.INFO):

FILE: pathpy/MarkovSequence.py
  class MarkovSequence (line 44) | class MarkovSequence:
    method __init__ (line 49) | def __init__(self, sequence):
    method fitMarkovModel (line 66) | def fitMarkovModel(self, k=1):
    method getLikelihood (line 100) | def getLikelihood(self, k=1, log=True):
    method getBIC (line 128) | def getBIC(self, k=1, m=1):
    method getAIC (line 153) | def getAIC(self, k=1, m=1):
    method estimateOrder (line 174) | def estimateOrder(self, maxOrder, method='BIC'):

FILE: pathpy/MultiOrderModel.py
  class MultiOrderModel (line 44) | class MultiOrderModel:
    method __init__ (line 50) | def __init__(self, paths, maxOrder=1):
    method summary (line 84) | def summary(self):
    method __str__ (line 96) | def __str__(self):
    method saveStateFile (line 104) | def saveStateFile(self, filename, layer=None):
    method getLikelihood (line 162) | def getLikelihood(self, paths, maxOrder=None, log=True):
    method factorial (line 202) | def factorial(self, n, log=True):
    method getLayerLikelihood (line 226) | def getLayerLikelihood(self, paths, l=1, considerLongerPaths=True, log...
    method getDegreesOfFreedom (line 349) | def getDegreesOfFreedom(self, maxOrder=None, assumption="paths"):
    method likeliHoodRatioTest (line 378) | def likeliHoodRatioTest(self, paths, maxOrderNull=0, maxOrder=1, assum...
    method estimateOrder (line 422) | def estimateOrder(self, paths, maxOrder=None, significanceThreshold=0....

FILE: pathpy/Paths.py
  class Paths (line 41) | class Paths:
    method __init__ (line 49) | def __init__(self):
    method summary (line 66) | def summary(self):
    method getSequence (line 106) | def getSequence(self, stopchar='|'):
    method getUniquePaths (line 132) | def getUniquePaths(self, l=0, considerLongerPaths=True):
    method __str__ (line 152) | def __str__(self):
    method readEdges (line 160) | def readEdges(filename=None, separator=',', weight = False, undirected...
    method readFile (line 200) | def readFile(filename=None, separator=',', pathFrequency = False, maxl...
    method writeFile (line 286) | def writeFile(self, filename, separator=','):
    method ObservationCount (line 311) | def ObservationCount(self):
    method expandSubPaths (line 324) | def expandSubPaths(self):
    method fromTemporalNetwork (line 367) | def fromTemporalNetwork(tempnet, delta=1, maxLength=_sys.maxsize):
    method addPathTuple (line 488) | def addPathTuple(self, path, expandSubPaths=True, frequency=(0,1)):
    method getContainedPaths (line 523) | def getContainedPaths(p, node_filter):
    method filterPaths (line 548) | def filterPaths(self, node_filter, minLength=0, maxLength=sys.maxsize):
    method projectPaths (line 575) | def projectPaths(self, mapping):
    method addPath (line 597) | def addPath(self, ngram, separator=',', expandSubPaths = True, pathFre...
    method getSlowDownFactor (line 641) | def getSlowDownFactor(self, k=2, lanczosVecs = 15, maxiter = 1000):
    method getEntropyGrowthRateRatio (line 681) | def getEntropyGrowthRateRatio(self, method='MLE', k=2, lanczosVecs=15,...
    method BWPrefMatrix (line 746) | def BWPrefMatrix(self, v):
    method __Entropy (line 782) | def __Entropy(prob, K=None, N=None, method='MLE'):
    method BetweennessPreference (line 808) | def BetweennessPreference(self, v, normalized=False, method = 'MLE'):
    method getNodes (line 923) | def getNodes(self):
    method getDistanceMatrix (line 934) | def getDistanceMatrix(self):
    method getShortestPaths (line 957) | def getShortestPaths(self):
    method BetweennessCentrality (line 984) | def BetweennessCentrality(self, normalized=False):
    method ClosenessCentrality (line 1014) | def ClosenessCentrality(self, normalized=False):
    method VisitationProbabilities (line 1041) | def VisitationProbabilities(self):

FILE: pathpy/TemporalNetwork.py
  class TemporalNetwork (line 38) | class TemporalNetwork:
    method __init__ (line 45) | def __init__(self, tedges = None):
    method readFile (line 106) | def readFile(filename, sep=',', timestampformat="%Y-%m-%d %H:%M", maxl...
    method filterEdges (line 189) | def filterEdges(self, edge_filter):
    method addEdge (line 209) | def addEdge(self, source, target, ts):
    method vcount (line 237) | def vcount(self):
    method ecount (line 247) | def ecount(self):
    method getObservationLength (line 257) | def getObservationLength(self):
    method getInterEventTimes (line 265) | def getInterEventTimes(self):
    method getInterPathTimes (line 277) | def getInterPathTimes(self):
    method summary (line 297) | def summary(self):
    method __str__ (line 322) | def __str__(self):
    method ShuffleEdges (line 330) | def ShuffleEdges(self, l=0, with_replacement=False):
    method exportUnfoldedNetwork (line 374) | def exportUnfoldedNetwork(self, filename):

FILE: tests/conftest.py
  function pytest_addoption (line 10) | def pytest_addoption(parser):
  function pytest_runtest_setup (line 15) | def pytest_runtest_setup(item):
  function test_data_directory (line 22) | def test_data_directory():
  function path_from_ngram_file (line 27) | def path_from_ngram_file():
  function path_from_edge_file (line 35) | def path_from_edge_file():
  function path_from_edge_file_undirected (line 43) | def path_from_edge_file_undirected():
  function generate_random_path (line 49) | def generate_random_path(size, rnd_seed):
  function random_paths (line 72) | def random_paths():
  function temporal_network_object (line 78) | def temporal_network_object():

FILE: tests/test_Path.py
  function test_readfile_import (line 15) | def test_readfile_import(path_from_ngram_file):
  function test_write_file (line 26) | def test_write_file(tmpdir, random_paths):
  function test_read_edges_import (line 42) | def test_read_edges_import(path_from_edge_file):
  function test_read_edges_undirected (line 54) | def test_read_edges_undirected(path_from_edge_file_undirected):
  function test_get_sequence (line 66) | def test_get_sequence(path_from_ngram_file):
  function test_get_unique_paths (line 76) | def test_get_unique_paths(random_paths):
  function test_observation_count_file (line 82) | def test_observation_count_file(path_from_ngram_file):
  function test_observation_count_large (line 87) | def test_observation_count_large(random_paths):
  function test_path_summary (line 93) | def test_path_summary(random_paths):
  function test_summary_multi_order_model (line 98) | def test_summary_multi_order_model(random_paths):
  function test_get_shortest_paths (line 104) | def test_get_shortest_paths(path_from_ngram_file):
  function test_get_contained_paths (line 135) | def test_get_contained_paths():
  function test_filter_paths (line 143) | def test_filter_paths(path_from_ngram_file):
  function test_project_paths (line 154) | def test_project_paths(path_from_ngram_file):
  function test_get_nodes (line 165) | def test_get_nodes(random_paths):

FILE: tests/test_TemporalNetwork.py
  function test_read_temporal_file_int (line 6) | def test_read_temporal_file_int(test_data_directory,):
  function test_read_temporal_file_time_stamp (line 18) | def test_read_temporal_file_time_stamp(test_data_directory,):
  function test_filter_temporal_edges (line 28) | def test_filter_temporal_edges(temporal_network_object):
  function test_get_interpath_times (line 40) | def test_get_interpath_times(temporal_network_object):
  function test_shuffle_edges (line 49) | def test_shuffle_edges(temporal_network_object):
  function test_inter_event_times (line 63) | def test_inter_event_times(temporal_network_object):
  function test_inter_path_times (line 69) | def test_inter_path_times(temporal_network_object):
  function test_temporal_summary (line 78) | def test_temporal_summary(temporal_network_object):

FILE: tests/test_estimation.py
  function test_estimate_order_1 (line 18) | def test_estimate_order_1():
  function test_estimate_order_2 (line 38) | def test_estimate_order_2():
  function test_estimate_order_strongly_connected (line 81) | def test_estimate_order_strongly_connected():
  function test_temp_net_extraction (line 112) | def test_temp_net_extraction(temporal_network_object):
  function test_betweenness_preference_empty (line 120) | def test_betweenness_preference_empty():
  function test_betweenness_preference_mle (line 130) | def test_betweenness_preference_mle(temporal_network_object):
  function test_betweenness_preference_miller (line 140) | def test_betweenness_preference_miller(temporal_network_object):
  function test_betweenness_preference_normalized (line 149) | def test_betweenness_preference_normalized(temporal_network_object):
  function test_slow_down_factor_random (line 158) | def test_slow_down_factor_random(random_paths):
  function test_get_distance_matrix_temporal (line 166) | def test_get_distance_matrix_temporal(temporal_network_object):
  function test_get_distance_matrix_empty (line 198) | def test_get_distance_matrix_empty():
  function test_betweenness_centrality (line 204) | def test_betweenness_centrality(path_from_ngram_file):
  function test_betweenness_centrality_norm (line 212) | def test_betweenness_centrality_norm(path_from_ngram_file):
  function test_closeness_centrality (line 220) | def test_closeness_centrality(path_from_ngram_file):
  function test_closeness_centrality_norm (line 232) | def test_closeness_centrality_norm(path_from_ngram_file):
  function test_visitation_probabilities (line 240) | def test_visitation_probabilities(path_from_ngram_file):
  function test_entropy_growth_rate_ratio_mle (line 252) | def test_entropy_growth_rate_ratio_mle(random_paths):
  function test_entropy_growth_rate_ratio_miller (line 259) | def test_entropy_growth_rate_ratio_miller(random_paths):