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This repository has been archived by the owner on Dec 17, 2021. It is now read-only.

Nextflow workflow for applying SuSiE finemapping model to a large number of molecular QTLs

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eQTL-Catalogue/susie-workflow

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susie-workflow

Nextflow workflow for applying the Sum of Single Effects (SuSiE) finemapping model to a large number of molecular QTLs.

This workflow has now been merged into the eQTL-Catalogue/qtlmap workflow and is no longer maintained independetly.

Usage

nextflow run main.nf\
 --qtl_results testdata/test_input.tsv\
 --cisdistance 200000 \
 --vcf_genotype_field GT\
 --permuted true\
 --n_batches 2\
 -resume \
 -profile finemapping  

Dependencies

All of the dependencies of the workflow are listed in the Dockerfile. Docker container is available from eqtlcatalogue/susie-finemapping.

Contributors

  • Kaur Alasoo
  • Masahiro Kanai