> For the complete documentation index, see [llms.txt](https://finngen.gitbook.io/documentation/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://finngen.gitbook.io/documentation/methods/genotype-imputation/software-used.md).

# Software used

* Hail v0.2
* Cromwell-42
* Wdltool-0.14
* Plink 1.9 and 2.0
* BCFtools 1.7 and 1.9
* Eagle 2.3.5
* Beagle 4.1 (version 27Jan18.7e1)
* R 3.4.1 (packages: data.table 1.10.4, sm 2.2-5.4)