mschatz
commented
1 year ago I agree sample A looks tetraploid. B is unusual. Is it from a single plant or a mixture? If it is mixed that can really complicate the analysis. Have you tried smudgepairs? That can sometimes help as well
Good luck!
Mike
On Mon, Feb 27, 2023 at 4:58 AM Huyuxi08 @.***> wrote:
Hi, Thanks for developing this great tool.
I'm trying to use GenomeScope 2 to identify the ploidy of two plant samples. The result of sample A indicates that it's a tetraploid. But the result of sample B is not that typical. If sample B is a tetraploid, is the reads duplication rate of these two samples that cause the difference in their GenomeScope plots? (The sequencing data of the two samples is the same, about 20G. And the genome size is 950 Mb) [image: 5F6FA29D-34B3-4C53-A5EE-ED42772C88B4] https://user-images.githubusercontent.com/60483748/221532396-eb22b465-4890-4e96-8dd7-75e10da7619c.jpeg
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Hi, Thanks for developing this great tool.
I'm trying to use GenomeScope 2 to identify the ploidy of two plant samples. The result of sample A indicates that it's a tetraploid. But the result of sample B is not that typical. If sample B is a tetraploid, is the reads duplication rate of these two samples that cause the difference in their GenomeScope plots? (The sequencing data of the two samples is the same, about 20G. ）