# BioBase

- [BioBase](https://biobase.mintlify.app/index.md): BioBase is the Infera desktop app for analyzing research data in a folder on your own computer.
- [Install BioBase](https://biobase.mintlify.app/getting-started/install.md): Download BioBase for Windows, macOS or Linux from your Infera account and keep it updated.
- [Sign in](https://biobase.mintlify.app/getting-started/sign-in.md): Connect BioBase to your Infera account through your browser, and what the connection means for this device.
- [Your first project](https://biobase.mintlify.app/getting-started/first-project.md): Open a folder as a project, ask the Data Agent a question, and open the result.
- [Uninstall BioBase](https://biobase.mintlify.app/getting-started/uninstall.md): Remove BioBase from Windows, macOS or Linux, and what stays on this device afterward.
- [Projects](https://biobase.mintlify.app/workspace/projects.md): Add a folder on your disk as a project, open Data Agent tabs in it, and reopen past sessions.
- [The Data Agent](https://biobase.mintlify.app/workspace/data-agent.md): Ask questions, choose a model, follow long analyses, and find the Data Agent's output files.
- [The terminal](https://biobase.mintlify.app/workspace/terminal.md): A terminal in the same project folder as the Data Agent, with split panes and voice dictation.
- [Files](https://biobase.mintlify.app/workspace/files.md): Browse the project folder and the Data Agent's outputs, open files in BioBase, or open them outside it.
- [Viewers](https://biobase.mintlify.app/viewers/overview.md): Which file types open in a BioBase viewer, and the limits every viewer shares.
- [Genome viewer](https://biobase.mintlify.app/viewers/genome.md): Plot BED, GFF, GTF, VCF, WIG and bedGraph tracks against a reference assembly.
- [Structures and sequences](https://biobase.mintlify.app/viewers/structures-and-sequences.md): View molecular structures in 3D and FASTA sequences as linear or circular maps.
- [Tables and arrays](https://biobase.mintlify.app/viewers/tables-and-arrays.md): Spreadsheets, CSV and TSV tables, NumPy arrays, HDF5 and AnnData files, R objects and Python pickles.
- [Documents and reports](https://biobase.mintlify.app/viewers/documents-and-reports.md): PDFs, HTML reports, Vega-Lite charts, Word documents and images.
- [Where your data lives](https://biobase.mintlify.app/your-data/where-your-data-lives.md): What stays on this device, what reaches the model, and what Infera Cloud keeps.
- [Backup and sync](https://biobase.mintlify.app/your-data/backup-and-sync.md): Turn on backup for a workspace, read its sync state, and bring it to another device.
- [Conflicts and deletion](https://biobase.mintlify.app/your-data/conflicts-and-deletion.md): What happens when two devices change the same file, and how deleting a file propagates.
- [Data Agent settings](https://biobase.mintlify.app/settings/data-agent.md): Account, device access, default model, usage and billing, backup and local storage.
- [Other settings](https://biobase.mintlify.app/settings/general-terminal-browser-voice.md): Where to find update, workspace folder, terminal, browser, voice, appearance, shortcut and notification settings.
- [Privacy and analytics](https://biobase.mintlify.app/settings/privacy.md): The analytics notice, what BioBase shares when you agree, and when collection stops.
- [Sign-in and connection](https://biobase.mintlify.app/troubleshooting/sign-in-and-connection.md): Messages about signing in, Data Agent responses, credits, updates and downloads, and what to do about each.
- [Sync problems](https://biobase.mintlify.app/troubleshooting/sync.md): Sync states that look stuck, failed transfers, and messages from the backup panel.
- [Files and viewers](https://biobase.mintlify.app/troubleshooting/files-and-viewers.md): A file that will not open, shows the wrong view, or is missing.


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