Data Preprocessing Requirements
Count Matrix Generation
Before using the Nygen, your sequencing data must be processed into count matrices. This preprocessing step typically involves:
- Converting raw sequencing data (FASTQ files) into gene expression matrices
- Processing through standard bioinformatics pipelines such as:
- Cell Ranger (for 10x Genomics data)
- alevin/alevin-fry
- kallisto|bustools
- STARsolo
- zUMIs
The platform accepts count matrices from any single-cell technology, provided they are properly formatted.
💡 Note: For specific details about supported file formats and data structures, please refer to the Data Formats section.
Technical Requirements
Browser Requirements
- Recommended Browsers:
- Google Chrome (latest version)
- Microsoft Edge (latest version)
- No specific plugins or extensions required
- Default browser settings are sufficient
- Active internet connection required
Account Setup
- Use your institutional email address to signup and get a generous freemium
- No credit card required for account creation
- Choose your default server location during initial setup
- Default server location can be changed later if needed
