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Hi,
I would like some adivce on what software tools to detect snps on 454 data. I want to be able also to exlude snp detection on repetitive, duplicated, low complexity regions, etc... ideally identifying SNPs only in regions harbouriong putative exons.
The approach used so far has been using CLC genomic workbench for reference assembly of single reads, and identification of Snps, but results are greatly affected by these repetitive regions, which so far Im unaware of how to avoid.
thanks for any input.
hans
I would like some adivce on what software tools to detect snps on 454 data. I want to be able also to exlude snp detection on repetitive, duplicated, low complexity regions, etc... ideally identifying SNPs only in regions harbouriong putative exons.
The approach used so far has been using CLC genomic workbench for reference assembly of single reads, and identification of Snps, but results are greatly affected by these repetitive regions, which so far Im unaware of how to avoid.
thanks for any input.
hans