I have been using GenomeScope to estimate the genome size of my assembled genome, which came out to be approximately 500 MB. The previously published genome size for this species is reported as 470 MB. Furthermore, when using different survey data:
The estimate based on Illumina (short-read) data gave a genome size of 390 MB.
The estimate based on HiFi (long-read) data gave a genome size of 430 MB.
I would like to understand why these discrepancies exist between the genome size estimated by GenomeScope and the survey data. Could you please provide insights into the possible reasons for this difference? Is there a specific factor that could lead to such a variation in the size estimations, especially considering the different sequencing technologies used?
Thank you in advance for your help.
short：
hifi：
I have been using GenomeScope to estimate the genome size of my assembled genome, which came out to be approximately 500 MB. The previously published genome size for this species is reported as 470 MB. Furthermore, when using different survey data:
The estimate based on Illumina (short-read) data gave a genome size of 390 MB.
The estimate based on HiFi (long-read) data gave a genome size of 430 MB.
I would like to understand why these discrepancies exist between the genome size estimated by GenomeScope and the survey data. Could you please provide insights into the possible reasons for this difference? Is there a specific factor that could lead to such a variation in the size estimations, especially considering the different sequencing technologies used?
Thank you in advance for your help.
short：
hifi：