Multiple causal variants, using SuSiE to separate the signals | Important notes on running SuSiE

Variant-specific priors in coloc | Using general variant-specific information | An example of variant-specific information

Data structures | First: select the SNPs to study. | A minimum coloc dataset | Analysing two datasets | What if I don't have sdY? | What if I don't have beta and/or varbeta? | Additional LD information for coloc.susie | NB studies from different populations | NB allele order matters!

Create some example data | Analysis with proportional coloc | Differences between fine-mapping and proportional coloc | Low power | LD

A brief outline of colocalisation analysis | A single causal variant assumption | Sensitivity analysis | Deprecated: relaxing the single causal variant assumption through conditioning | An improved approach to relaxing the single causal variant assumption: SuSiE | Footnotes

Multiple causal variants

Sensitivity analysis

Fine mapping under a single causal variant assumption | (Approximate) Bayes Factor colocalisation analyses | Introduction | The basic coloc.abf function