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To to set the number of HSP in blastn tabular output

I am trying to generate blastn output to be used in MEGAN, the command line I used is

blastall -p blastn -d nt -a 8 -F T -b 10 -v 10 -e 1e-5 -m 8 -i III -o RRR.blastn

I sometimes got more than 600 HSP for one query, although the total number of hit-genome was 10, the HSP per hit-genome could more than 10, is there a way to set number of HSP per hit-genome? I have tried the -K, -B, and --max_target_seqs in new blastn, none of them helps. Anyone can help me with this? the aim is to reduce the size of output.

blast hsp
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updated by Ram Ram • written by Mingkun • Mingkun

1 answer

problem solved, max-hsps in the latest blastn

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updated by Ram Ram • written by Mingkun • Mingkun

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