Question: Is it possible to generate a single maf file from multiple vcf files using vcf2maf ?
1
gravatar for sselvar
15 months ago by
sselvar20
sselvar20 wrote:

Hi,

I have 40 raw vcf files and I was able to convert all these 40 vcf files to 40 individual maf files. But, when I read the GDC pipeline it was mentioned that a single maf files could be generated for a single project involving multiple vcf files. I was curious to know if vcf2maf can do this conversion i.e., if vcf2maf can convert multiple vcf files to a single aggregated maf file. If it can be done, can you tell how to do so?

sequencing snp genome • 537 views
ADD COMMENTlink modified 15 months ago by finswimmer13k • written 15 months ago by sselvar20

Why not just apply vcf2maf to individual file and then merge all the maf with sample id index?

ADD REPLYlink written 15 months ago by Shicheng Guo8.4k
1

Yeah, I can do that as well but just wanted to know if the tool can itself generate a single maf file. Thank you for the quick reply!

ADD REPLYlink written 15 months ago by sselvar20
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