Simulated assemblies for "Multi-genome synteny detection using minimizer graph mappings"

ntSynt is a multi-genome synteny detection tool that utilizes lightweight minimizer graphs to simultaneously map multiple genomes to one another. We tested ntSynt on multiple ~3 Gbp genomes, and show that it computes high-quality macrosynteny blocks quickly and with a low memory footprint.

Here, we provide human assemblies with simulated rearrangements at various variant rates. The T2T human reference genome was rearranged in 4 separate runs using SURVIVOR, and SNVs (single nucleotide variants) and indels (small insertions and deletions) were introduced at various rates using pIRS. SURVIVOR was configured to simulate two translocations between 10–50 kbp, 20 inversions between 10–50 kbp and 20 indels between 50–100 kbp.  Each gzipped tarball provided contains the 4 rearranged human genomes at the different SNV (-s) and indel (-d) rates.