Flapjack
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Getting started

  • Quickstart

Dealing with data

  • Projects & Data Formats
  • GOBii QTL Format
  • Pedigree Information
  • Favourable Alleles/Alt Marker Names
  • Import Data
  • Duplicate Markers
  • Export Data
  • Quick Export Data
  • Export Image

Visualizing genotypes

  • Genotype Visualization
  • Modes and Views
  • Selecting Lines and Markers
  • Show/Hide Lines
  • Show/Hide Markers
  • Filtering Markers
  • Chromosome Map Scaling
  • Colour Schemes
  • Customize Colours
  • Allele Frequency Threshold
  • Bookmarks
  • Toggle Visible Displays
  • Create New View
  • Database Link Settings

Other visualizations

  • Chromosome Visualization
  • Phenotype Visualization
  • Select Traits
  • QTL Visualization
  • Filter QTLs
  • Graph Visualization

Analysis features

  • Find by Name
  • Sort Lines
  • Similarity Matrix Creation
  • Dendrogram Creation
  • Marker Assisted Back Crossing
  • Marker Assisted Back Crossing Tutorial
  • Pedigree Verification (F1s Known Parents)
  • Pedigree Verification (F1s Known Parents) Tutorial
  • Pedigree Verification Lines (parental contribution)
  • Pedigree Verification - Lines (parental contribution) Tutorial
  • Forward Breeding
  • Indexed Forward Breeding
  • Analysis Results Tables
  • Batch Analysis
  • Video Tutorials

Miscellaneous topics

  • Preferences
  • Tips and Shortcuts
  • Command Line Support
  • Allocating Memory
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