GPF: Genotypes and Phenotypes in Families

• GPF User Interface
  • Dataset Tools
    • Dataset Description
    • Genotype Browser
    • Phenotype Browser
    • Enrichment Tool
    • Phenotype Tool
    • Dataset Statistics
  • metaTools
    • MetaQuery
  • Management Tools
    • GPF User Management
• GPF Administration
  • GPF Getting Started Guide
    • Prerequisites
    • GPF Installation
    • Run GPF web server
    • Getting Started with Enrichment Tool
    • Getting Started with Preview Columns
    • Getting Started with Phenotype Data
    • Dataset Statitistics and de Novo Gene Sets
    • Getting Started with Annotation Pipeline
    • Using Apache Impala as storage
    • Example Usage of GPF Python Interface
  • Working With Pedigree Files Guide
    • Brief outline
    • Prerequisites
    • Preparing the pedigree data
    • Common arguments for the pedigree tools
    • Transform a pedigree file into canonical GPF form
    • Visualize a pedigree file into PDF file
  • Working With VCF Files Guide
    • Import data from the “1000 Genome Project”
    • Creating the pedigree file
    • Creating the VCF files
    • Importing the data into GPF
  • Phenotype Database Tools
    • Import a Phenotype Database
    • Generate Pheno Browser Data
    • Measure Classification
  • GPF Tools
    • Simple Study Import
    • Impala Batch Import
    • Generate Denovo Gene Sets
    • Generate Common Report
  • Data Appendix
    • Gene Weights
    • Genomic Scores
    • Columns
• GPF Development
  • dae Interface
    • variants package
    • pheno package
    • pheno_tool package
    • enrichment_tool package
    • gene package
    • annotation_pipeline