Welcome to Mendel,MD’s documentation!¶

Contents:

  • Mendel,MD
  • Requirements
  • Other Libraries Needed
  • OMIM Data
  • Docker
  • Manual Installation
  • Installing PostgreSQL Database
  • Installation on Ubuntu 16.04 LTS (tested)
  • Installing Pynnotator
  • Installing Mendel,MD
  • Start the annotation
  • Creating a superuser
  • Importing Genes and Diseases Data
  • Upload your VCFs using the web interface
  • Deployment on RedHat/CentOS 7
  • Pynnotator
  • Libraries
  • Databases
  • Features
  • Requirements
  • Installation
  • Test
  • Clinical Cases
    • Upload of Examples
    • Autosomal Recessive - Homozygous
    • Autosomal Recessive - Compound Heterozygous
    • Autosomal Dominant - Heterozygous
    • Dominant X-linked - Hemizygous
  • Filter Analysis
    • One Click
    • Family Analysis
    • Individuals Options
    • VCF Options
    • Annovar Options
  • Description of the Fields
    • Func refGene
    • Gene.refGene
    • ExonicFunc.refGene
    • AAChange.refGene
    • phastConsElements46way
    • genomicSuperDups
    • esp6500si_all
    • 1000g2012apr_all
    • LJB2_SIFT
    • LJB2_PolyPhen2_HDIV
    • LJB2_PP2_HDIV_Pred
    • LJB2_PolyPhen2_HVAR
    • LJB2_PolyPhen2_HVAR_Pred
    • LJB2_LRT
    • LJB2_LRT_Pred
    • LJB2_MutationTaster
    • LJB2_MutationTaster_Pred
    • LJB_MutationAssessor
    • LJB_MutationAssessor_Pred
    • LJB2_FATHMM
    • LJB2_GERP++
    • LJB2_PhyloP
    • LJB2_SiPhy
    • cosmic65
    • avsift
    • SIFT
    • PolyPhen-2
    • Condel
  • Extension

Indices and tables¶

  • Index
  • Module Index
  • Search Page

Table Of Contents

  • Welcome to Mendel,MD’s documentation!
  • Indices and tables

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