Question: Individual genotypes for the HapMap (HapMap and 1000G) samples
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gravatar for Jimbou
5.3 years ago by
Jimbou690
Germany
Jimbou690 wrote:

Hello again, 

Here my next problem:

Is there an easy way to get the latest individual genotypes for the HapMap (These samples from the HapMap project. The id starts usually with NA...) samples? 

I tried several things but without any success. 

Here a list of tools I used:

DataSlicer 

BiomaRt and R, HapMap Browser, Ensembl...

What they have in common is that some individuals or genotypes are missing or it's an old hg release or it's even impossible. The combination of the HapMap and the 1000G data would be nice.

My goal is a simple genotype Matrix, like this:

 

Sample

rs1234 rs2314
NA19256 0 A/T
NA19257 2 A/A
NA25819 0 A/A

It doesn't matter which code. Binary or Bases, etc.

And is there a good answer why this is such a hard task? Especially the combination of HapMap and 1000G data?

Thanks

matrix snp genotypes 1000g hapmap • 2.2k views
ADD COMMENTlink modified 5.1 years ago by Biostar ♦♦ 20 • written 5.3 years ago by Jimbou690

same question, some answeres: Dbsnp Individual Genotyping Information For Specific Snps

ADD REPLYlink written 4.9 years ago by Jimbou690
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