Association Analysis Snp Which Package To Use

Question

[edufoju]

Dear all.

I have genotyped different SNP arrays with the package crlmm. Once I get the large matrix object (snpmatrix) or snpset with genotyped information, which package should I use to get an association analysis?To know which snps are more present in the disease samples.

I've seen some packages but they need a different input (plink,bam..), that I don't have.

Thank you

[zx8754]

Duplicate of Once I got the SNParray genotyped , what's the next step ?