FSuite

FSuite analyzes inbreeding information in human genomic datasets derived from single nucleotide polymorphism (SNP) chip and exome data to detect inbred individuals, estimate inbreeding coefficients, characterize mating types, and map shared regions of homozygosity.

Key Features:

• Supported data types: Operates on single nucleotide polymorphism (SNP) chip and exome genotype data.
• Inbreeding detection and coefficient estimation: Identifies individuals with elevated inbreeding and computes their inbreeding coefficients.
• Mating type analysis: Estimates the proportion of different mating types in a population and computes individual probabilities of being offspring from specific mating types.
• Homozygosity mapping: Detects shared regions of homozygosity among affected individuals to support mapping of recessive variants.
• Integrated script suite: Provides a collection of scripts to generate and summarize inbreeding metrics across samples.
• Graphical output: Produces graphical visualizations of results via R functions.

Scientific Applications:

• Population Genetics: Characterizes genetic structure, mating patterns, and inbreeding within populations using SNP chip and exome data.
• Disease Research: Supports identification of candidate regions and rare recessive mutations through homozygosity mapping in affected individuals.

Methodology:

Perl scripts perform data processing and R functions generate graphical outputs.