.. I am working on flooding related aspects in the soybean.... I have two recombinant inbred line populations having mother parent common i.e AxB and CxB . RIL Population (AxB) has 104 lines and CxB has 126 lines. I have bin map with 2400 and 2700 SNP markers respectively... Is it possible to get association map by developing the SNP-LDB(Linkage disequilibrium Block) of two populations jointly and say it as the GWAS?
to my knowledge, what we got as inpute file in linkage map and association mapping is the same, i mean phenotypic data and genotypic data, therefore you can do association mapping in bi-parental populations BUT it is not expected to have low LD to uses advantage of association mapping also you would loss some extra results such as franking markers, confidence interval , coefficient of determination and etc .
I agree with Mohamed IN everything he said except that the efficient of determination can be obtained by TASSEL...
many thanks for answerand kind suggestions Mohammad Ghanbari and Ahmed Sallam
Hi Jaffer,
I am in the situation as you. Would you be able to tell me how did you go with analysis? Did association anlaysis work well for you?
Hello @ Zaffer Ali..
DId you perform GWAS/ Association mapping in RIL population. Please share if you found it appropriate?
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