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Parameters: |
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ParseBlastOutput
(string, seqid_thres=0, evalue_thres=inf)¶Parses the blast output and returns a list of BlastHits setting no seqid_thres or evalue_thres, restores default behaviour without filtering
AlignedPatch
(aln, bit_score, score, evalue, seqid)¶An aligned patch, aka. HSP
aln
¶The local alignment. Sequence offset of both sequences in the alignment are set to the starting position in the query and target sequence, respectively.
Type: | AlignmentHandle |
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bit_score
¶The bit score of the HSP
score
¶The score of the HSP
evalue
¶The E-value of the HSP
seqid
¶The sequence identity of the HSP
BlastHit
(identifier, aligned_patches)¶A positive match found by BLAST.
Each blast hit consists of one or more HSPs, encoded by the
AlignedPatch
class.
identifier
¶The identifier of the matching sequence
aligned_patches
¶list of AlignedPatch
instances holding the actual HSPs.
BlastError
(brief, details)¶Enter search terms or a module, class or function name.
dssp
- Secondary structure assignment
hhblits
- Search related sequences in databases
bindings
– Interfacing external programs
blast
- Search related sequences in databases