Contig/Scaffold Length- Variant Calling
0
0
Entering edit mode
8.4 years ago

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?

variant-calling snp contigs • 2.6k views
ADD COMMENT

Login before adding your answer.

Traffic: 1927 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6