User Documentation Open App โ†—

Getting Started

Create your account, add credits, and run your first analysis.

Creating an account

Go to formaticon.cellformatica.com/register to sign up. The registration form requires four fields:

  • Name: your full name as it will appear on your account.
  • Email: used for login and any notifications. Must be unique.
  • Phone: optional for contact purposes.
  • Password: choose a secure password of at least 8 characters.
The Formaticon dashboard showing the three workflow entry points and the AI assistant.
The Formaticon dashboard after login, showing Batch Query, Detailed Report, and the Bioscientist Agent entry points.

After submitting, you are automatically logged in and redirected to the dashboard.

The Formaticon dashboard showing the three workflow entry points and the AI assistant.
The Formaticon dashboard after login, showing Batch Query, Detailed Report, and the Bioscientist Agent entry points.

Logging in

Visit formaticon.cellformatica.com/login and enter your registered email and password. Your session persists in a secure browser cookie โ€” you will remain logged in across browser restarts until you log out manually from the profile menu.

Managing your account

Once logged in you can manage your account by clicking on your account name in the top right corner of the AI scientist interface or by clicking at red circle with a letter in the top right corner of Formaticon legacy dashboard and selecting Profile or by visiting https://formaticon.cellformatica.com/profile    There you can update your credentials including resetting the password and purchasing the computational credits (Top Up Balance ) through Stripe transaction.

The Formaticon login modal with email and password fields.
The login modal โ€” enter your registered email and password, then click Login.

Password reset

If you forget your password, use the Forgot password link on the login page. Enter your registered email address; you will receive a reset link. Click it and enter a new password. If the email does not arrive within a few minutes, check your spam folder or contact support via the Cellformatica website.

Using your own AI vendor keys

You can use your own AI vendor keys (openai and anthropic) by entering them into the corresponding fields. This will lower your computational bill. Otherwise Cellformatica will use its own keys for the run. In many cases the latter option is better due to higher rate limits that Cellformatica has with these vendors.


Understanding credits

Formaticon uses a pay-per-use credit system. Each research run deducts credits based on the AI compute consumed, primarily Anthropic Claude API tokens and any auxiliary API calls during the analysis. Credits are deducted only on successful completion; failed runs are not charged.

Checking your balance

Your current credit balance is shown in the top-right corner of every page once you are logged in. The balance updates immediately after each run completes.

Adding credits

  1. Open your Profile Click your name or avatar in the top-right corner and select Profile.
  2. Navigate to Billing On the Profile page, find the billing section. Click Add credits or Purchase credits.
  3. Complete payment via Stripe You are redirected to a secure Stripe checkout page. Enter your card details and confirm. Credits are added to your account immediately on payment success.
Insufficient credits If you try to submit a run without enough credits, you will see a NOT_ENOUGH_MONEY error. Add credits before resubmitting. See History, Sharing & Billing for details.

Choosing the right workflow

Formaticon offers three research workflows. The table below helps you decide which to use based on your input and the type of output you need.

Criterion Batch Query Detailed Report Bioscientist Agent
Your input A question + a list of entities (genes, drugs, diseases, cell types) A question + a focused gene list (up to ~30) Any open-ended research question or task description
Output type Interactive ranked table + scatter plot + CSV download Multi-section PDF/DOCX report Full PDF/DOCX white paper with figures, hypotheses, PRISMA protocol, and references
Typical runtime A few minutes 30โ€“90 minutes 1โ€“2.5 hours
Best for Candidate screening, gene prioritisation, drug repurposing Pathway/regulatory analysis of a known gene panel Systematic literature review, white paper, hypothesis generation, open research questions
Downloads CSV PDF, DOCX PDF, DOCX, all figures, session log, RIS reference file
Sharing Read-only access-token link Read-only access-token link Read-only access-token link

Tips for your first run

Start with a Batch Query If you are new to Formaticon, a Batch Query is the quickest way to see results. Submit a focused scientific question with 10โ€“20 gene symbols and you will have an interactive table in minutes.
  • Be specific: vague questions like "what do these genes do?" produce less useful results than "which of these kinases are upregulated in triple-negative breast cancer and associated with poor prognosis?"
  • Use standard identifiers: for genes, use HGNC-approved symbols (e.g. TP53, BRCA1). For drugs, use INN names. For diseases, use established terminology (e.g. MeSH terms).
  • For the Bioscientist Agent, include context: mention the organism, disease context, data type, or desired output format in your task description. The more specific, the better the pipeline can tailor its search strategy.
  • Check your balance before submitting: the form shows a cost estimate before you confirm. Make sure you have enough credits.

Next steps