Talking to CoPI
The assistant knows your notebooks, your project, and remembers what matters across sessions. Think of it as a collaborator who has read everything you have written and never forgets a result.
What it knows
Section titled “What it knows”- Your notebook — every piece of your work: code, results, notes, tables, figures.
- Your whole project — all notebooks, not just the current one. It can search across experiments, compare results, and connect dots.
- What you have asked it to remember — findings, decisions, protocols, patterns. See How Memory Works for details.
Where to chat
Section titled “Where to chat”In a notebook — Open the chat panel while working. The assistant starts with that notebook’s content but can pull in anything from your project. It can also write code, add new sections, or run analyses.
At the project level — Find “Project Chat” in the sidebar or the project page. This mode looks across all notebooks equally and is good for broad questions like “What have I found so far about gene X?” or “Which experiments used the same cell line?”
Example questions
Section titled “Example questions”Understand your results:
- “What patterns do you see in this differential expression data?”
- “Is this fold change statistically meaningful given the variance?”
Connect across experiments:
- “How do these results compare to the Western blot from last week?”
- “Which notebooks mention CRISPR knockout efficiency?”
Get suggestions:
- “What analysis should I run next?”
- “What controls am I missing?”
Write and edit:
- “Add a methods section summarizing the protocol I used”
- “Write a code block that plots the top 20 differentially expressed genes”
References
Section titled “References”When the assistant cites your work, you will see clickable inline references. References to your current notebook scroll to the relevant section. References to other notebooks show a preview with a link to open that notebook. This makes it easy to verify what the assistant is telling you and trace claims back to your actual data.
Making changes
Section titled “Making changes”In notebook chat, the assistant can propose changes to your notebook — new code blocks, additional sections, or modified analyses. Each proposed change appears as a card that you can review before applying. Nothing is added to your notebook without your approval. You can accept individual changes, modify them, or dismiss them entirely.