Use learned-indexes based seeding with precomputed index?
schorlton opened this issue · 0 comments
schorlton commented
Hi,
Thanks for your awesome work. Like original minimap2, is it possible to use a precomputed index (instead of FASTA file) with mm2-fast to save time?
Eg. in original minimap2, I may:
minimap2 -d index.mmi -ax map-ont reference.fasta
minimap2 -a index.mmi reads.fastq > output.sam
In current example, it looks like only a FASTA file is mentioned/supported as the index base. Alternatively, does mm2-fast even read the FASTA or does it only use its name to find the outputs from build_rmi.sh
? Thanks!