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LTFGRS Workflow: Prepare Genetic Liability for Multi-trait GWAS3 months ago
Simulate mock trio, phenotype, and CIP data | Cumulative incidence proportions (CIP) | Trio information | Phenotype data | Preparing for estimate_liability() | Population graph | Automatic identification of n-degree relatives | Mixture model genetic liability estimates
LTFGRS Workflow: Prepare Genetic Liability for Multi-Trait Prediction3 months ago
Simulate mock trio, phenotype, and CIP data | Cumulative incidence proportions (CIP) | Trio information | Phenotype data | Preparing for estimate_liability() | Population graph | Automatic identification of n-degree relatives | Censoring of future events on a family basis | Assign thresholds to censored families | Assign thresholds to family graphs | Estimating genetic liabilities with estimate_liability() | FGRS with personalised threshold and PA | FGRS with personalised threshold and Gibbs | FGRS with mixture model | Parallelisation
Kendler workflow5 months ago
Simulate mock trio, phenotype, and CIP data | Cumulative incidence proportions (CIP) | Trio information | Phenotype data | Preparing for kendler_simplified() | Preparing thresholds and cumulative incidence proportions | Population graph | Automatic identification of n-degree relatives | Estimating the simplified Kendler FGRS
Reflections on the use of population representative CIPs5 months ago
Simulating mock data | Mock phenotypes | Calculating CIPs | FGRS with population representative CIPs | FGRS with over-ascertained CIPs | Comparing the results
From trio information to full families5 months ago
From trio information to graph | From graph to subgraph and kinship matrix | Calculate kinship matrix
Identifying, labelling, and plotting family relations from graphs5 months ago
Introduction
iGraph data management5 months ago
Manipulating attributes | Using attributes for calculations | Removing vertices with certain attribute values
LTFGRS Workflow: Prepare Genetic Liability for GWAS5 months ago
Simulate mock trio, phenotype, and CIP data | Cumulative incidence proportions (CIP) | Trio information | Phenotype data | Preparing for estimate_liability() | Preparing thresholds and cumulative incidence proportions | Population graph | Automatic identification of n-degree relatives | Estimating genetic liabilities with estimate_liability() | FGRS with personalised threshold and PA | FGRS with personalised threshold and Gibbs | FGRS with mixture model | Parallelisation
LTFGRS Workflow: Prepare Genetic Liability for Prediction5 months ago
Simulate mock trio, phenotype, and CIP data | Cumulative incidence proportions (CIP) | Trio information | Phenotype data | Preparing for estimate_liability() | Population graph | Automatic identification of n-degree relatives | Censoring of future events on a family basis | Assign thresholds to censored families | Assign thresholds to family graphs | Estimate the genetic liability | Parallelisation