Chemistry & Biology Markdown
Turn Markdown into an ELN-friendly scientific page: SMILES, reaction SMILES, medchem SAR tables, SeqViz, phylogenetic trees, 3Dmol.js structures, charts, diagrams, and local attachments.
richRendering.demosTitle
richRendering.demosSubtitle
Scientific renderers
Ohai keeps source text readable while rendering the structures and visuals scientists actually need to inspect.
SMILES Chemistry
Render molecule blocks and inline SMILES without leaving Markdown. Useful for mechanisms, compound notes, and quick structure checks.
MedChem SAR Tables
Place inline SMILES structures beside potency, selectivity, ADME, and notes columns for compact medicinal chemistry reviews.
Reaction SMILES
Show reactants, agents, products, co-reactants, and labels from reaction SMILES in the same report as your rationale.
3D Molecular Views
Use 3Dmol.js-backed structure views for proteins, ligands, surfaces, and model snapshots inside the document.
SeqViz Maps
Render DNA, RNA, and protein sequence maps from text configs or files for construct reviews and protocol notes.
Phylogenetic Trees
Render Newick trees with phylotree.js for biology reviews, taxonomy notes, and sequence-analysis summaries.
Assay Charts
Use Chart.js blocks for dose response, screening summaries, time courses, and data tables that change as analysis scripts rerun.
ELN Attachments
Reference local images, videos, generated plots, data files, and transcluded notes so attachments appear where the experiment is discussed.
Markdown stays inspectable
Inline math: $e^{i\pi} + 1 = 0$
```mermaid
flowchart LR
Data --> Model --> Report
```
```smiles
CC(=O)Oc1ccccc1C(=O)O
```
```chart
{ "type": "line", "data": { "labels": ["A", "B"], "datasets": [] } }
```Scientific user journeys
Medicinal chemists
Build SAR summaries with compound structures, assay values, reaction context, and exportable decision notes.
Biologists
Keep sequences, construct maps, phylogenetic trees, 3D structures, and protocol attachments in one live reader.
ELN-style notebooks
Use Markdown as a readable experiment page with local attachments, generated figures, and transcluded supporting files.
Review handoff
Export rendered scientific notes to HTML, PDF, or DOCX while keeping the Markdown source easy to audit.
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