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Introduction

Our platform provides a comprehensive set of tools designed for genomic data analysis, covering the entire workflow from data conversion to advanced statistical analysis. These tools are organized into five main categories to help you efficiently process, analyze, and interpret genomic data.

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Tool Categories

Data Conversion & Processing

12 tools for converting, filtering, and processing genomic data formats

Analysis & Querying

8 tools for statistical analysis and data exploration

ANOVA Tools

12 specialized tools for variance analysis in genomic studies

GWAS Tools

4 tools for genome-wide association studies

Knowledge Base & Search

RAG-powered semantic search for genomic information

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Quick Start

1

Choose your category

Select the appropriate tool category based on your analysis needs
2

Review tool documentation

Each tool page includes detailed usage instructions and examples
3

Start analyzing

Follow the specific tool documentation to begin your analysis

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Common Workflows

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VCF Processing Pipeline

  1. Convert genomic data to VCF format using genomic_to_vcf
  2. Validate compatibility with check_vcf_compatibility
  3. Index the VCF file using index_vcf
  4. Filter variants by genes or RSIDs as needed

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ANOVA Analysis Workflow

  1. Plan and validate inputs with plan_anova_inputs
  2. Map sample identifiers using anova_id_conversion or anova_wes_id_mapping
  3. Run ANOVA analysis with anova_with_vcf
  4. Filter coding variants using anova_filter_coding_variants
  5. Compare frequencies with anova_reference_allele_freq
  6. Prioritize variants using anova_freq_diff_topk

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GWAS Analysis Workflow

  1. Prepare PLINK inputs with plan_plink_gwas_inputs
  2. Execute GWAS analysis using run_plink_gwas
  3. Visualize results with create_manhattan_plot
  4. Identify significant loci and follow up

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Statistical Analysis Workflow

  1. Prepare data using conversion tools
  2. Analyze with SQL queries or ANOVA tests
  3. Visualize results with Manhattan plots (for GWAS)
  4. Interpret findings using the knowledge base search