diamond
diamond copied to clipboard
Use custom score matrix error?
Dear,
I use custom score matrix below :
and running the below command use diamond v2.1.9.163 :
diamond blastp --more-sensitive -d dataset.fa -q query.part_001.fa -p 5 -f 6 qseqid sseqid pident length mismatch ppos gapopen qstart qend sstart send evalue bitscore qlen slen stitle -o dataset.fa.1.blast.out --max-target-seqs 5 --custom-matrix matrix.txt --gapopen 11 --gapextend 1
There are one error:
#CPU threads: 5 Error: The ALP library failed to compute the statistical parameters for this matrix. It may help to adjust the gap penalty settings.
How to solve it? How to set the --gapopen and --gapextend parameter? Thank you very much! I am looking forwards your reply!