Anyone know if the #seqseqpan result could be obtained with other programs (thinking #minigraphCactus and #hal alignments)?

The #seqseqpan alignments have been super useful to me to (1) screen whole genome alignments for sequence structural variation and sequence conservation, and (2) compare genome annotations that are rather hard to eyeball with minimap2 or MUMmer alignments.

Been working on a #pangenome tutorial comparing alignments with #minimap2 (left) and #seqseqpan (right) and adding genome features, including species-specific sequences, sequence similarity, TEs, and ATAC-seq (data from Heliconius butterflies). https://stevenvb12.github.io/