Fix broken links in README.md

Author: JohT

README.md

@@ -75,35 +75,36 @@ If you think in architecture terms: domains are the vertical slices, report type
 
 Here is a curated overview of report examples and exploratory notebooks from [code-graph-analysis-examples](https://github.com/JohT/code-graph-analysis-examples). These examples are grouped by user-facing output, not by domain.
 
-- [External Dependencies](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/external-dependencies-java/ExternalDependenciesJava.md) contains detailed information about external library usage ([Notebook](./domains/external-dependencies/explore/ExternalDependenciesJava.ipynb)).
-- [Git History](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/git-history-general/GitHistoryGeneral.md) contains information about the git history of the analyzed code ([Notebook](./domains/git-history/explore/GitHistoryGeneralExploration.ipynb)).
-- [Internal Dependencies](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies-java/InternalDependenciesJava.md) is based on [Analyze java package metrics in a graph database](https://joht.github.io/johtizen/data/2023/04/21/java-package-metrics-analysis.html) and also includes cyclic dependencies ([Notebook](./domains/internal-dependencies/explore/InternalDependenciesJava.ipynb)).
-- [Method Metrics](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/method-metrics-java/MethodMetricsJava.md)  shows how the effective number of lines of code and the cyclomatic complexity are distributed across the methods in the code ([Notebook](./domains/java/explore/MethodMetricsJavaExploration.ipynb)).
-- [Node Embeddings](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/node-embeddings-java/NodeEmbeddingsJava.md) shows how to generate node embeddings and to further reduce their dimensionality to be able to visualize them in a 2D plot ([Notebook](./domains/node-embeddings/explore/NodeEmbeddingsJavaExploration.ipynb)).
-- [Object Oriented Design Quality Metrics](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/object-oriented-design-metrics-java/ObjectOrientedDesignMetricsJava.md) is based on [OO Design Quality Metrics by Robert Martin](https://api.semanticscholar.org/CorpusID:18246616) ([Notebook](./domains/internal-dependencies/explore/ObjectOrientedDesignMetricsJava.ipynb)).
-- [Overview](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/overview-java/OverviewJava.md) contains overall statistics and details about methods and their complexity. ([Notebook](./domains/overview/explore/OverviewJavaExploration.ipynb)).
-- [Visibility Metrics](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/visibility-metrics-java/VisibilityMetricsJava.md) ([Notebook](./domains/internal-dependencies/explore/VisibilityMetricsJava.ipynb)).
-- [Wordcloud](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/wordcloud/Wordcloud.md) contains a visual representation of package and class names ([Notebook](./domains/internal-dependencies/explore/Wordcloud.ipynb)).
-- [Java Archetypes Treemap](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/anomaly-detection/JavaTreemap2ArchetypesOverviewPerDirectory.svg) ([Python Script](./domains/anomaly-detection/treemapVisualizations.py))
+- [External Dependencies](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/external-dependencies/external_dependencies_report.md) contains detailed information about external library usage ([Notebook](./domains/external-dependencies/explore/ExternalDependenciesJava.ipynb)).
+- [Git History](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/git-history/git_history_report.md) contains information about the git history of the analyzed code ([Notebook](./domains/git-history/explore/GitHistoryGeneralExploration.ipynb)).
+- [Internal Dependencies](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/internal_dependencies_report.md) is based on [Analyze java package metrics in a graph database](https://joht.github.io/johtizen/data/2023/04/21/java-package-metrics-analysis.html) ([Notebook](./domains/internal-dependencies/explore/InternalDependenciesJava.ipynb)).
+- [Cyclic Dependencies](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/cyclic-dependencies/cyclic_dependencies_report.md) contains information about cyclic dependencies in the analyzed code ([Notebook](./domains/cyclic-dependencies/explore/CyclicDependenciesJavaExploration.ipynb)).
+- [Java Method Metrics](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/java/java_report.md#3-method-metrics) shows how the effective number of lines of code and the cyclomatic complexity are distributed across the methods in the code ([Notebook](./domains/java/explore/MethodMetricsJavaExploration.ipynb)).
+- [Node Embeddings](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/node-embeddings/node_embeddings_report.md) shows how to generate node embeddings and to further reduce their dimensionality to be able to visualize them in a 2D plot ([Notebook](./domains/node-embeddings/explore/NodeEmbeddingsJavaExploration.ipynb)).
+- [Object Oriented Design Quality Metrics](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/internal_dependencies_report.md#8-object-oriented-design-metrics) is based on [OO Design Quality Metrics by Robert Martin](https://api.semanticscholar.org/CorpusID:18246616) ([Notebook](./domains/internal-dependencies/explore/ObjectOrientedDesignMetricsJava.ipynb)).
+- [Overview](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/overview/overview_report.md) contains overall statistics and details about methods and their complexity. ([Notebook](./domains/overview/explore/OverviewJavaExploration.ipynb)).
+- [Visibility Metrics](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/internal_dependencies_report.md#9-visibility-metrics) ([Notebook](./domains/internal-dependencies/explore/VisibilityMetricsJava.ipynb)).
+- [Wordcloud](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/internal_dependencies_report.md#10-code-vocabulary) contains a visual representation of package and class names ([Notebook](./domains/internal-dependencies/explore/Wordcloud.ipynb)).
+- [Java Archetypes Treemap](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/archetypes/archetypes_report.md#13-overview-charts) ([Python Script](./domains/anomaly-detection/treemapVisualizations.py))
 
 ### :blue_book: Graph Data Science Examples
 
 These examples show selected outputs powered by Neo4j's [Graph Data Science Library](https://neo4j.com/product/graph-data-science) across several domains. For a complete list, see the [CSV Cypher Query Report Reference](#page_with_curl-csv-cypher-query-report-reference).
 
-- [Centrality with Page Rank](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/centrality-csv/Package_Centrality_Page_Rank.csv) ([Source Script](./domains/graph-algorithms/centralityCsv.sh))
-- [Community Detection with Leiden](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/community-csv/Package_communityLeidenId_Community__Metrics.csv) ([Source Script](./domains/graph-algorithms/communityCsv.sh))
-- [Node Embeddings with HashGNN](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/node-embeddings-csv/Package_Embeddings_HashGNN.csv) ([Source Script](./domains/node-embeddings/nodeEmbeddingsCsv.sh))
-- [Path Finding with all pairs shortest path](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/path-finding-csv/Package_all_pairs_shortest_paths_distribution_per_project.csv) ([Source Script](./domains/internal-dependencies/internalDependenciesCsv.sh))
-- [Similarity with Jaccard](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/similarity-csv/Package_Similarity.csv) ([Source Script](./domains/graph-algorithms/similarityCsv.sh))
-- [Topology Sort](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/topology-csv/Package_Topological_Sort.csv) ([Source Script](./domains/internal-dependencies/internalDependenciesCsv.sh))
+- [Centrality with Page Rank](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/graph-algorithms/Java_Package/centrality/Package_Centrality_Page_Rank.csv) ([Source Script](./domains/graph-algorithms/centralityCsv.sh))
+- [Community Detection with Leiden](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/graph-algorithms/Java_Package/communities/Package_communityLeidenId_Community__Metrics.csv) ([Source Script](./domains/graph-algorithms/communityCsv.sh))
+- [Node Embeddings with HashGNN](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/node-embeddings/Package_Embeddings_HashGNN.csv) ([Source Script](./domains/node-embeddings/nodeEmbeddingsCsv.sh))
+- [Path Finding with all pairs shortest path](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/Java_Package/Package_all_pairs_shortest_paths_distribution_per_project.csv) ([Source Script](./domains/internal-dependencies/internalDependenciesCsv.sh))
+- [Similarity with Jaccard](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/graph-algorithms/Java_Package/similarity/Package_Similarity.csv) ([Source Script](./domains/graph-algorithms/similarityCsv.sh))
+- [Topology Sort](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/Java_Package/Package_Topological_Sort.csv) ([Source Script](./domains/internal-dependencies/internalDependenciesCsv.sh))
 
 ### :art: Graph Visualization Examples
 
 Here are some fully automated graph visualizations utilizing [GraphViz](https://graphviz.org) from [code-graph-analysis-examples](https://github.com/JohT/code-graph-analysis-examples):
 
-- [Java Artifact Build Levels](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies-visualization/JavaArtifactBuildLevels.svg) ([Query](./domains/internal-dependencies/queries/internal-dependencies/Java_Artifact_build_levels_for_graphviz.cypher), [Source Script](./scripts/visualization/visualizeQueryResults.sh))
-- [Java Artifact Longest Path Contributors](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/path-finding-visualization/JavaArtifactLongestPaths.svg) ([Query](./domains/internal-dependencies/queries/path-finding/Path_Finding_6_Longest_paths_contributors_for_graphviz.cypher), [Source Script](./scripts/visualization/visualizeQueryResults.sh))
-- [Java Package Top #1 Authority Archetype and contributing packages](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/anomaly-detection/Java_Package/GraphVisualizations/TopAuthority1.svg) ([Query](./domains/archetypes/labels/ArchetypeAuthority.cypher), [Source Script](./domains/archetypes/graphs/archetypesGraphs.sh))
+- [Java Artifact Build Levels](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/Java_Artifact/Graph_Visualizations/JavaArtifactBuildLevels.svg) ([Query](./domains/internal-dependencies/queries/internal-dependencies/Java_Artifact_build_levels_for_graphviz.cypher), [Source Script](./scripts/visualization/visualizeQueryResults.sh))
+- [Java Artifact Longest Path Contributors](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/internal-dependencies/Java_Artifact/Graph_Visualizations/JavaArtifactLongestPaths.svg) ([Query](./domains/internal-dependencies/queries/path-finding/Path_Finding_6_Longest_paths_contributors_for_graphviz.cypher), [Source Script](./scripts/visualization/visualizeQueryResults.sh))
+- [Java Package Top #1 Authority Archetype and contributing packages](https://github.com/JohT/code-graph-analysis-examples/blob/main/analysis-results/AxonFramework/latest/archetypes/Java_Package/GraphVisualizations/TopAuthority1.svg) ([Query](./domains/archetypes/labels/ArchetypeAuthority.cypher), [Source Script](./domains/archetypes/graphs/archetypesGraphs.sh))
 
 ## :book: Blog Articles