The resulting data set contain about 2200 SNPs
At least I compare my result data set whit dbSNP132.txt and 1kg.lc.2010_7.CEU.liftedhg19.pgSnp.
The resulting data set contain 700 SNPs.

Now the question:
The problem is that I must have 200 SNPs instead of 700....
I have check the resutls and I saw that some result are duplicated for all parameters but had a different rs ID.

how can I remove the wrong one???

please help me.

some one I heard about SOAPsnp but I don't know how to use. Could anyone please help me.

Thanks