Mojtaba Jahani

icon company University of British Columbia icon location Vancouver, BC, Canada icon location Postdoctoral Research Fellow at the University of British Columbia. bioinformatician, data scientist, plant breeder

Results 6 comments of Mojtaba Jahani

haps are smaller than expected

The size of *asm.hic.p_ctg.gfa is 844829462. Yes, it does have sex chromosome. The target genome is a female plant with XX sex chromosomes.

haps are smaller than expected

Thanks for your reply. I will try Hi-C heatmap and/or contig-to-contig alignment. Another Question. When I decrease the -s parameter to 48, haps sizes are much closer (balance), and BUSCO...

haps are smaller than expected

My bad, I meant --hom-cov 48. Would any of -S or --hom-cov work in my case?

Scaffolding dual assembly

That is my question too, please let me know if you find any answer for it. Thanks, Mojtaba

Scaffolding dual assembly

Yes, I am doing the same thing. However, the results are not promising so far. There are large differences between the two haplotypes.

False duplications

Thanks for your answer, $MERQURY/eval/false_duplications.sh calculates the percentage of false duplication while I was looking for a bed file that shows the location of those segments. Like what has been...