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Opening BGEN files in R

I am looking for an R package to open BGEN files (Binary GEN file format), is there any such thing I could use or should I just convert the BGEN file to GEN file?

r snp
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updated by Florian Privé (privefl) • Florian Privé (privefl) • written by dreamweaver • dreamweaver

2 answers

This is an old question, but as of 2017 there's an R package for this.

Best, g.

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written by gavinband • gavinband

You can use R package bigsnpr for this (disclaimer: I'm the author). See https://privefl.github.io/bigsnpr/reference/snp_readBGEN.html.

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written by Florian Privé (privefl) • Florian Privé (privefl)

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