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Assigning locus to set of SNPs based on its chromosome position

Hi all,

So I have this tab-delim file with information on (following columns)

SNP    CHR    POS   Allele1    Allele2    A.Freq1    Effect    StdErr    P.value

Now I would like to assign the SNPs to its corresponding locus based on the chromosome position.

As I am new in this field - I find it hard to even start in the right place. Will be great if someone can give some ideas/suggestions. Thanks in advance

IP

genome assembly
• 3,080 views • link
updated by Ram Ram • written by iphoenix2100 • iphoenix2100

1 answer

Hi,

There are many tools that can do this, but my favourite is the Ensembl Variant Effect Predictor (VEP).

Bert

• 0 views • link
updated by Ram Ram • written by Bert Overduin Bert Overduin

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