search

waveygang / wfmash

base-accurate DNA sequence alignments using WFA and mashmap2
MIT License
172 stars 15 forks source link

Specify queries #242

Closed ekg closed 1 month ago

ekg commented 2 months ago

This tweaks query handling a bit to make it so we can take a list of query sequences or a query prefix.

ekg commented 2 months ago

The meaning of the -Q flag changes a lot, now it's a file with sequence names listed, rather than a file listing files.

Freddielee21 commented 1 month ago

Can anyone help me with queries list

ekg commented 1 month ago

@Freddielee21 yes, there is a script which takes an indexed FASTA file and a query group size and writes job commands for all-vs-all alignment.