Hi,
I am working on marine mammals and I am interested in using ntSynt to detect multi-genome syntenic regions. The authors recommended using Mash to estimate divergence for mapping parameters, and since the genomes are large, I wanted to know if I should use or tweak any parameters.
I followed the instructions on the readthedocs.org website. Three of the genomes are chromosome-scale- scaffolded with Hi-C, and the 4th one has thousands of contigs since it wasn't scaffolded; the others are comprised of at most 23 MB sequences.
Thank you.
Hi,
I am working on marine mammals and I am interested in using ntSynt to detect multi-genome syntenic regions. The authors recommended using Mash to estimate divergence for mapping parameters, and since the genomes are large, I wanted to know if I should use or tweak any parameters.
I followed the instructions on the readthedocs.org website. Three of the genomes are chromosome-scale- scaffolded with Hi-C, and the 4th one has thousands of contigs since it wasn't scaffolded; the others are comprised of at most 23 MB sequences.
Thank you.