Entering edit mode
10.3 years ago
williamjohn360
▴
90
In our lab we have preliminary assembly on non-model genome organism. In the assembled genome, length varies from contig of 500 (shortest) to scaffold of 2000000 bp (longest). I want to to identify SNP with same subset of illumina paired-end reads that were used in genome assembly. Is there any criteria on contig/scaffold length for identifying SNP?. If I have to normalize contig length how I can do it before calling SNP?
