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mermaid
Generation of diagrams like flowcharts or sequence diagrams from text in a similar manner as markdown
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wiki
A helpful wiki, which doubles as my personal notebook for all things "software engineering." (by austintraver)
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InfluxDB
Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.
Have you considered text-based diagramming tools (e.g. graphviz, mermaid)?
Since you seem interested in this stuff, my notebook is hosted on helpful.wiki and you can view the source code on GitHub to see the stack for yourself. I use KaTeX in place of MathJax, Goldmark in place of Kramdown, and for LaTeX, I use Mathsnip, something I had no idea existed up until quite recently.
I use Zim Wiki. It's a graphical editor that generates markdown. It will do nested directories, hyperlinking, has plugins for things like daily journal entries.
If you only want to use vim for everything, check out VimWiki. It has similar referencing functionality as Obsidian.