Question: Are there any new/novel R packages and other software to compare a 100 of VCF files?
0
gravatar for genomicswolf
3.0 years ago by
genomicswolf20
genomicswolf20 wrote:

Are there any new/novel R packages and other software to compare a 100 of VCF files? Tried GATK and VCF tools and nextGene. Need a better solution for a hunderds of VCFs.

R vcf • 573 views
ADD COMMENTlink written 3.0 years ago by genomicswolf20

Could you be more specific on what you aim to achieve? "Compare" is quite generic.

ADD REPLYlink written 3.0 years ago by WouterDeCoster41k

find differences in vcfs, thx

ADD REPLYlink written 3.0 years ago by genomicswolf20

Oh right now I understand. Differences.

Could you be more specific on what you aim to achieve? "Differences" is quite generic.

ADD REPLYlink written 3.0 years ago by WouterDeCoster41k

Not new and not sure whether it fits your needs but did you take a look at the VariantAnnotation bioconductor package?

ADD REPLYlink written 3.0 years ago by ddiez1.8k
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