Hi all,
I'm very new to the world of genomics and CNVs so forgive me if my question is a bit basic.
I will be looking into detecting CNVs in multiple organisms (plant and fish) and all my data will come from illumina Nextseq 500 sequencing.
There seems to be a fair amount of CNV detection tools out there, but I am confused as to which ones I can use for non-human genomes (or genomes that are not frequently used such as mice etc). I wanted to try out CNVnator and Rdxplorer but if I understand correctly those can only be used on human data.
I've found some cattle CNV studies have used MrFast. But I have read mixed reviews about this.
Does anyone know/have experience with CNV detection tools for nun-human genomes? and could recommend some that I can try out with my organisms. (also to specify, I do have reference genomes, so will not be doing de novo assembly)
Thanks in advance for the help!
I'm very new to the world of genomics and CNVs so forgive me if my question is a bit basic.
I will be looking into detecting CNVs in multiple organisms (plant and fish) and all my data will come from illumina Nextseq 500 sequencing.
There seems to be a fair amount of CNV detection tools out there, but I am confused as to which ones I can use for non-human genomes (or genomes that are not frequently used such as mice etc). I wanted to try out CNVnator and Rdxplorer but if I understand correctly those can only be used on human data.
I've found some cattle CNV studies have used MrFast. But I have read mixed reviews about this.
Does anyone know/have experience with CNV detection tools for nun-human genomes? and could recommend some that I can try out with my organisms. (also to specify, I do have reference genomes, so will not be doing de novo assembly)
Thanks in advance for the help!
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