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nf-core / gwas

UNDER CONSTRUCTION: A pipeline for Genome Wide Association Studies
https://nf-co.re/gwas
MIT License
22 stars 17 forks source link

Tools to be explored #20

Open abhi18av opened 3 years ago

abhi18av commented 3 years ago

This issue holds all of the tools we'd like to explore/add to the gwas workflow.

https://github.com/nebfield/snpQT https://github.com/genepi/nf-gwas

abhi18av commented 3 years ago

Adding the tools suggested by @FloWuenne on slack channel.

FloWuenne commented 3 years ago

Another powerful tool to perform association testing, with some speed advantages over SAIGE is REGENIE:

Paper: https://www.nature.com/articles/s41588-021-00870-7

Homepage: https://rgcgithub.github.io/regenie/

Biocontainers: https://biocontainers.pro/tools/regenie

abhi18av commented 2 years ago

Suggested by @lassefolkersen

https://github.com/PGScatalog/pgsc_calc