[R] how to import/read .vcf files in R

Ana Marija @okov|c@@n@m@r|j@ @end|ng |rom gm@||@com
Tue Jan 28 18:46:04 CET 2020


Thanks for the tip!

On Tue, Jan 28, 2020 at 11:36 AM Bert Gunter <bgunter.4567 using gmail.com> wrote:
>
> As this apparently involves genomic data, I would suggest that you ask this on the BioConductor site:
> https://www.bioconductor.org/help/
> especially if you don't get effective help here.
>
> Bert Gunter
>
>
>
>
> On Tue, Jan 28, 2020 at 9:29 AM Ana Marija <sokovic.anamarija using gmail.com> wrote:
>>
>> Hello,
>>
>> I tried doing:
>> > library(vcfR)
>> > vcf <- read.vcfR("ALL.chr1.phase3_shapeit2_mvncall_integrated_v5a.20130502.genotypes.vcf", verbose = FALSE )
>>
>> but this takes forever to load and I am not sure it is even working.
>>
>> Any other suggestion on how I can read in .vcf file in R?
>>
>> Thanks
>> Ana
>>
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