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Wrapper for the NCBI BLAST+ program tblastx.

With the release of BLAST+ (BLAST rewritten in C++ instead of C), the NCBI
replaced the old blastall tool with separate tools for each of the searches.
This wrapper therefore replaces BlastallCommandline with option -p tblastx.

>>> from Bio.Blast.Applications import NcbitblastxCommandline
>>> cline = NcbitblastxCommandline(help=True)
>>> cline
NcbitblastxCommandline(cmd='tblastx', help=True)(more...)

src/s/e/SeqFindR-0.31/SeqFindR/blast.py   SeqFindR(Download)
from Bio.Blast.Applications import NcbiblastnCommandline
from Bio.Blast.Applications import NcbitblastnCommandline
from Bio.Blast.Applications import NcbitblastxCommandline
 
import SeqFindR.util
        if args.tblastx:
            sys.stderr.write('Using tblastx\n')
            run_command = NcbitblastxCommandline(query=query, seg='no',
                        db=database, outfmt=5, num_threads=args.BLAST_THREADS,
                        max_target_seqs=1, evalue=args.evalue, 

src/b/i/biopython-1.63/Doc/examples/ACT_example.py   biopython(Download)
from reportlab.lib.units import cm
 
from Bio.Blast.Applications import NcbitblastxCommandline
from Bio.Graphics.GenomeDiagram import Diagram, CrossLink
from Bio.SeqFeature import SeqFeature, FeatureLocation

src/b/i/biopython-HEAD/Doc/examples/ACT_example.py   biopython(Download)
from reportlab.lib.units import cm
 
from Bio.Blast.Applications import NcbitblastxCommandline
from Bio.Graphics.GenomeDiagram import Diagram, CrossLink
from Bio.SeqFeature import SeqFeature, FeatureLocation