康明明

Dear Pasi， Thank you for your response. I have encountered a new issue while using ordermarker2. I tried adjusting the scale parameter from scale=0.208 2 to scale=0.936 9, which means changing from 2M/N 2 to 9M/N 9. During this process, I observed that as NUM1 increases (M/N), the likelihood value and the overall graph distance have been slowly increasing, although the increase is not very significant. Therefore, I am puzzled about whether this parameter should be taken seriously and how to evaluate...

Dear Pasi， Thank you for your response. I have encountered a new issue while using ordermarker2. I tried adjusting the scale parameter from scale=0.208 2 to scale=0.936 9, which means changing from 2M/N 2 to 9M/N 9. During this process, I observed that as NUM1 increases (M/N), the likelihood value and the overall graph distance have been slowly increasing, although the increase is not very significant. Therefore, I am puzzled about whether this parameter should be taken seriously and how to evaluate...

Dear Pasi， Thank you for your response! While using the software, I had a question: Since we utilize virtual parental information in the pedigree file, is it possible to include virtual grandparent genotype information in the final VCF file, assuming that the grandparents of the hybrid F2 population are homozygous? Can we then use LepMap3 software to construct the genetic map? Best wishes, kang mingming

Dear Pasi， Thank you very much for your response. I have another question: when I visualize the dot file output from LMplot using Graphviz, I notice that one of the edges is red. According to the official documentation, red edges indicate errors. How should I interpret this error, and what steps can I take to avoid or correct it? Best wishes, kang mingming

Dear Pasi， Thank you very much for your response. I have another question: when I visualize the dot file output from LMplot using Graphviz, I notice that one of the edges is red. According to the official documentation, red edges indicate errors. How should I interpret this error, and what steps can I take to avoid or correct it? Best wishes, kang mingming

Dear Pasi， Thank you very much for your response. I have another question: when I visualize the dot file output from LMplot using Graphviz, I notice that one of the edges is red. According to the official documentation, red edges indicate errors. How should I interpret this error, and what steps can I take to avoid or correct it? Best wishes, kang mingming

Dear Pasi， Hello, I would like to ask if a likelihood value around -666000 in the OrderMarkers2 results is normal. I have run the analysis twice, and the results are consistently around that value. I'm working with an F2 population from a cross of homozygous parents, consisting of 218 individuals and approximately 1,360,000 SNP markers. Since the parents are known to be homozygous, I did not sequence them. Instead, I entered virtual parents in the pedigree file, with specific information in pedigree.tsv....

Oh, I think I've got the pedigree file sorted out. It seems to be fine for now.