blastx seq/dust problems
If you specify a -F option, make sure that the dust binary is in your path. Also, the Korf blast book has some useful discussion and recommendations about blast parameters.
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Originally posted by z3199001 View Postearly learner question here,
I'm trying to run a BLASTX and i'm getting errors returned saying that it can't use DUST filtering.
The help says that by default BLASTX is SEG filtering can anyone tell me how to define this in the command? all the help says is "-F Filter query sequence (DUST with blastn, SEG with others) [String]" is this as simple as -F SEG cause that doesn't seem to work either.
any help would be much appreciated..
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Originally posted by z3199001 View PostI'm trying to run a BLASTX and i'm getting errors returned saying that it can't use DUST filtering. The help says that by default BLASTX is SEG filtering can anyone tell me how to define this in the command? all the help says is "-F Filter query sequence (DUST with blastn, SEG with others) [String]" is this as simple as -F SEG cause that doesn't seem to work either.
BLASTX searches a a protein databases using a translated nucleotide query. Hence your query is Protein, not DNA. Hence it uses SEG, not DUST. Just supply "-F T" as the option to "blastall".
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Help with BLASTX command
early learner question here,
I'm trying to run a BLASTX and i'm getting errors returned saying that it can't use DUST filtering.
The help says that by default BLASTX is SEG filtering can anyone tell me how to define this in the command? all the help says is "-F Filter query sequence (DUST with blastn, SEG with others) [String]" is this as simple as -F SEG cause that doesn't seem to work either.
any help would be much appreciated..Tags: None
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