User Guides

Welcome to the ProteinIQ user guides section. Here you'll find step-by-step tutorials and workflows for common bioinformatics tasks using our platform.

Available Guides

Getting Started Guides

• Your First Protein Analysis - Complete walkthrough for new users
• Understanding File Formats - Guide to supported formats
• Batch Processing Workflows - Efficient analysis of multiple sequences

Analysis Workflows

• Protein Characterization Pipeline - Comprehensive protein analysis
• Sequence Conversion Workflows - Converting between formats
• Structure Analysis Guide - Working with protein structures

Advanced Topics

• API Integration - Programmatic access to tools
• Data Export and Visualization - Working with results
• Quality Control Best Practices - Ensuring data integrity

Guide Categories

Beginner Guides

Perfect for users new to bioinformatics or the ProteinIQ platform:

• Basic concepts and terminology
• Step-by-step instructions with screenshots
• Common pitfalls and how to avoid them
• Links to additional resources

Intermediate Workflows

For users comfortable with basic operations:

• Multi-step analysis pipelines
• Combining multiple tools effectively
• Interpreting complex results
• Optimization techniques

Advanced Techniques

For experienced users and developers:

• Custom analysis workflows
• API integration examples
• Automation strategies
• Performance optimization

How to Use These Guides

Each guide follows a consistent structure:

1. Overview: What you'll learn and prerequisites
2. Step-by-Step Instructions: Detailed walkthrough
3. Expected Results: What to look for
4. Troubleshooting: Common issues and solutions
5. Next Steps: Related guides and advanced topics

Prerequisites

Most guides assume:

• Basic understanding of bioinformatics concepts
• Familiarity with common file formats (FASTA, PDB, etc.)
• Access to sample data (provided in each guide)

Sample Data

All guides include sample data you can use to follow along:

• Example protein sequences
• Test structure files
• Reference datasets
• Expected output files

Getting Help

If you encounter issues while following a guide:

1. Check the troubleshooting section
2. Verify you're using the correct input format
3. Review the prerequisites
4. Contact support with specific error messages

Contributing

We welcome feedback on our guides:

• Suggest improvements or corrections
• Request new topics
• Share your own workflows
• Report broken links or outdated information

Quick Reference

Common Tasks

• Analyze a protein sequence: Start with First Analysis Guide
• Convert file formats: See Sequence Conversion
• Process multiple files: Check Batch Processing
• Work with structures: Review Structure Analysis

Tool-Specific Guides

Each major tool has dedicated guides:

• Molecular weight calculation workflows
• Protein property analysis pipelines
• Structure manipulation techniques
• File conversion best practices

Start with the guide that matches your current needs, and don't hesitate to explore related topics as you become more comfortable with the platform.