Hello,
Thank you for developing Gubbins. It is a great tool for identifying and removing regions of recombination in multiple genome sequence alignments. I would like to ask whether Gubbins can be applied to small circular DNA virus genomes, specifically genomes of approximately 3.0 kb in size. I work with a group of plant DNA viruses known as geminiviruses, which are highly prone to recombination, both between species and within strains.
I would greatly appreciate your thoughts on whether Gubbins is suitable for this type of dataset, or if you have any recommendations or considerations for analyzing recombination in such small viral genomes.
Thank you in advance for your time and advice.
Best regards,
Tomas
Hello,
Thank you for developing Gubbins. It is a great tool for identifying and removing regions of recombination in multiple genome sequence alignments. I would like to ask whether Gubbins can be applied to small circular DNA virus genomes, specifically genomes of approximately 3.0 kb in size. I work with a group of plant DNA viruses known as geminiviruses, which are highly prone to recombination, both between species and within strains.
I would greatly appreciate your thoughts on whether Gubbins is suitable for this type of dataset, or if you have any recommendations or considerations for analyzing recombination in such small viral genomes.
Thank you in advance for your time and advice.
Best regards,
Tomas