Hello, dear author. I am using pyrho to calculate the historical recombination rate of oysters and find recombination hotspots. I have encountered a problem. There is a long section of chromosome 9 from 2.3mb to 3.3mb that is a straight line. What is going on? I calculated that the recombination rate of adjacent SNP intervals is 5 times higher than the median recombination rate of the chromosome as a recombination hotspot. This method results in this 1mb section being a hotspot, which is obviously unlikely. I see a total of 1057 SNPs in this section. What is going on? Please help me.
chr9.txt
Hello, dear author. I am using pyrho to calculate the historical recombination rate of oysters and find recombination hotspots. I have encountered a problem. There is a long section of chromosome 9 from 2.3mb to 3.3mb that is a straight line. What is going on? I calculated that the recombination rate of adjacent SNP intervals is 5 times higher than the median recombination rate of the chromosome as a recombination hotspot. This method results in this 1mb section being a hotspot, which is obviously unlikely. I see a total of 1057 SNPs in this section. What is going on? Please help me.
chr9.txt