search

ParBLiSS / FastANI

Fast Whole-Genome Similarity (ANI) Estimation
Apache License 2.0
368 stars 66 forks source link

-i option? #29

Open apredeus opened 5 years ago

apredeus commented 5 years ago

Hello,

I think it would be very helpful to make an option similar to -i option in mash:

-i Sketch individual sequences, rather than whole files, e.g. for multi-fastas of single-chromosome genomes or pair-wise gene comparisons.

I know that pretty much the same thing could be achieved with lists, but generating 10's of thousands of files is cumbersome (I'm doing plasmids and contigs right now).

Thank you for the great tool! Looking forward to seeing how different my results would be, compared to mash.

jiarong commented 3 years ago

I also think this option would be VERY useful. Metagenome samples nowadays can easily generate 100's of thousands of contigs. Writing each of them as a file can be very demanding for the file systems.