first implementation but far to be optimal

mkdocs.yml

@@ -0,0 +1,44 @@
+site_name: obikmer
+docs_dir: docmd
+site_dir: doc
+
+theme:
+  name: material
+
+plugins:
+  - mermaid2:
+  - bibtex:
+      bib_file: docmd/references.bib
+      csl_file: docmd/ecology-letters.csl
+
+markdown_extensions:
+  - admonition
+  - footnotes
+  - tables
+  - pymdownx.superfences
+  - pymdownx.arithmatex:
+      generic: true
+
+extra_javascript:
+  - https://unpkg.com/mathjax@3/es5/tex-mml-chtml.js
+
+nav:
+  - Home: index.md
+  - Theory:
+      - Kmers and super-kmers: theory/kmers.md
+      - DNA encoding: theory/encoding.md
+      - Entropy filter: theory/entropy.md
+      - Partitioning architecture: theory/indexing.md
+  - Implementation:
+      - SuperKmer: implementation/superkmer.md
+      - Kmer: implementation/kmer.md
+      - Chunk reader: implementation/chunkreader.md
+      - Construction pipeline: implementation/pipeline.md
+      - On-disk storage: implementation/storage.md
+      - MPHF selection: implementation/mphf.md
+  - Architecture:
+      - Sequences: architecture/sequences/invariant.md
+
+watch:
+  - docmd
+  - mkdocs.yml