Charlie Library

Analyze your own scientific PDF documents with Charlie. Get precise analyses on data you control, even on paywalled articles that only you have access to.

Emerit Science Team

Updated: May 2026

When you use the Library, Charlie relies solely on the documents you have uploaded (scientific PDFs, articles, reports, etc.). This allows you to obtain accurate analyses of data you control—even if it includes paywalled articles that only you have access to.

⚡ Save time, analyze more and dig deeper

Access the full content of your articles, not just public abstracts

Library Objectives

The Library allows you to work with your own collection of scientific documents to:

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Specific Questions

Ask highly specific questions on a defined corpus and get precise answers

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Multi-Document Synthesis

Synthesize multiple documents simultaneously for a comprehensive overview

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In-Depth Comparison

Compare or extract targeted information across different publications

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Multi-Axis Analysis

Analyze along different axes: summary, concepts, key points, methodology...

How to Upload Your Documents?

To get started, create a Library and add your documents to it. Charlie offers two methods:

upload

Import Your PDF Documents

Drag and drop or select your PDF files directly from your computer. Charlie will analyze the content of these documents to answer your questions.

PDF format up to 20MB per file
Direct analysis of full content
Ideal for your paywalled articles or proprietary documents

Let Charlie Find Your Documents

Import a CSV or RIS file with your article DOIs. Charlie will automatically retrieve available documents.

Import via CSV file with DOIs
Import via RIS file (Zotero, etc.)
Automatic retrieval of available documents

How do I use the Library?

Here are the different ways you can use your documents in the Library:

1. Target Information in a Single Document

→ "What are the conclusions of this article?"

→ "Can you summarize the experimental method?"

→ "What are the main results reported?"

2. Compare Multiple Documents

→ "Compare the methodological approaches of the three articles I uploaded."

→ "What are the differences between the results of studies A and B?"

→ "Are there any contradictions between these publications?"

3. Explore Cross-Cutting Themes

→ "What biological markers are cited in these documents?"

→ "Can you extract the animal models used?"

→ "What therapeutic targets are mentioned in these three articles?"

4. Navigate a Complex Document

→ "Where are the main figures located?"

→ "Does this document cite any clinical trials?"

→ "Can you explain the 'Discussion' section in simple terms?"

5. Explore Multiple Angles

→ "What are the reported effects of metformin in oncology?"

→ "Are these effects observed independently of diabetes?"

→ "Can you list the mechanistic hypotheses proposed in the literature?"

Combine your corpus with EmeritScience and the web

The Library is no longer compartmentalized. You can enable Reflection Mode within a session linked to your Library so that Charlie can search simultaneously in your corpus, the EmeritScience scientific database (PubMed, bioRxiv, HAL…), and the web. This is ideal for putting your articles into context with open-access literature.

The sources panel on the side of the answer automatically categorizes results by source—Your Corpus, EmeritScience, Web—so you can see at a glance what comes from your PDFs and what comes from external sources.

Need to ask a contextual question that doesn't relate to your corpus? Turn off the "Search library" toggle in the search bar: Charlie will ignore your PDFs for this query and will use only the academic or web index, depending on the other toggles.

Best Practices

To get the most out of the Library, follow these recommendations:

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Prepare your corpus
Import well-targeted documents based on your needs. A coherent corpus will yield better results.
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Name your documents clearly
If you want to reference a specific document, give it an explicit name (e.g., "Study_Smith_2023.pdf" rather than "article1.pdf").
search
Analyze along multiple axes
Leverage different perspectives: automatic summary, key points, concepts, methodology, results, etc.
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Add automatically retrieved articles
Articles retrieved by Charlie can be added to your personal workspace for deeper analysis.
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Ask questions about the content
Don't hesitate to ask Charlie about specific details in your documents.
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Request rephrasing
If the answer is too technical, ask Charlie to rephrase in simpler or more detailed terms.

Current Limitations to Know

Charlie is constantly evolving to improve its capabilities. Here are features currently in development or unavailable:

Feature	Status	Details
Author name search or systematic search	cancel Not available	The "Deep Search" feature will allow Charlie to search in detail across the entire database
Access to patents	cancel Not available	Integration planned for 2026
Access to clinical trials	cancel Not available	Integration planned for 2026
Access to full-text paywalled articles	lock Restricted	Requires the user to upload their PDF files to a library

warning What to Avoid and What to Prefer

cancel Avoid:

→ "Give me all articles about protein X"
Charlie will provide a selection from the 20 most relevant abstracts available
→ "Which articles were written by Dupont?"
Charlie does not yet search by author names

check_circle Prefer:

→ "What are the known mechanisms of protein X in cell signaling?"
→ "How is Y involved in the pathogenesis of Z?"
→ "What are the reported effects of JAK/STAT pathway inhibition in hematological cancers?"

Ready to Analyze Your Scientific Documents?

Upload your PDFs to the Library and start asking questions at Charlie to get accurate and in-depth analyses.

Try the Library