Parallel reading of Vcfs using VcfStack/RangedVcfStack
2
1
Entering edit mode
@mvan_iterson-7879
Last seen 5.0 years ago
Netherlands

I really appreciate the latest addition to GenomicFiles VcfStack for handling a collection of vcfs, very convenient!

However, I could not find any documentation to extract information from the vcfstack in parallel, i.e. using the assay-method. By looking at the source code I noticed this function is using the Map-function, a wrapper around mapply. So could this be replaced by bpmapply to extract the information in parallel?

Regards,

Maarten
 

GenomicFiles BiocParallel • 715 views
ADD COMMENT
1
Entering edit mode
shepherl 3.3k
@lshep
Last seen 2 days ago
United States

Thank you very much for your interest.  We think this is a good suggestion and will look at implementing sometime during the next month. 

ADD COMMENT
0
Entering edit mode

Thanks that would be really nice!

ADD REPLY
1
Entering edit mode
shepherl 3.3k
@lshep
Last seen 2 days ago
United States

Sorry for the delay.  We have made updates and this should be implemented in the devel version of GenomicFiles >= 1.13.9

ADD COMMENT

Login before adding your answer.

Traffic: 384 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6