Did I find the right examples for you? yes no      Crawl my project      Python Jobs

All Samples(17)  |  Call(0)  |  Derive(0)  |  Import(17)
This module provides code to work with the BLAST XML output
following the DTD available on the NCBI FTP
ftp://ftp.ncbi.nlm.nih.gov/blast/documents/xml/NCBI_BlastOutput.dtd

Classes:
BlastParser         Parses XML output from BLAST (direct use discouraged).
                    This (now) returns a list of Blast records.
                    Historically it returned a single Blast record.
                    You are expected to use this via the parse or read functions.
(more...)

src/b/i/biopython-1.63/Doc/examples/www_blast.py   biopython(Download)
from Bio import SeqIO
from Bio.Blast import NCBIWWW
from Bio.Blast import NCBIXML
 
# first get the sequence we want to parse from a FASTA file

src/b/i/biopython-HEAD/Doc/examples/www_blast.py   biopython(Download)
from Bio import SeqIO
from Bio.Blast import NCBIWWW
from Bio.Blast import NCBIXML
 
# first get the sequence we want to parse from a FASTA file

src/b/i/biskit-2.4/Biskit/Mod/SequenceSearcher.py   biskit(Download)
 
from Bio.Blast import NCBIWWW
from Bio.Blast import NCBIXML
from Bio.Blast import NCBIStandalone
from Bio import SeqIO

src/o/l/oligotyping-HEAD/Oligotyping/utils/blast.py   oligotyping(Download)
try:
    from Bio.Blast import NCBIWWW
    from Bio.Blast import NCBIXML
except:
    raise MissingModuleError, biopython_error_text

src/s/e/seq_crumbs-HEAD/crumbs/utils/optional_modules.py   seq_crumbs(Download)
 
try:
    from Bio.Blast import NCBIXML, NCBIWWW
except ImportError:
    NCBIXML = create_fake_class(MSG + BIO)

src/i/v/ivy-phylo-20120228/ivy/genbank.py   ivy-phylo(Download)
import re, sys
from collections import defaultdict
from itertools import izip_longest, ifilter
from Bio import Entrez, SeqIO
from Bio.Blast import NCBIWWW, NCBIXML

src/b/c/bcbb-HEAD/visualize/blast_conservation_plot.py   bcbb(Download)
from Bio import Entrez
from Bio.Blast import NCBIWWW
from Bio.Blast import NCBIXML
from Bio.SubsMat import MatrixInfo
import pylab

src/p/y/pytools-HEAD/blast.py   pytools(Download)
import sys
from Bio.Blast import NCBIWWW
from Bio.Blast import NCBIXML
 
def number_genome_qblast_hits(seqreclist):

src/d/u/DuctApe-0.16.4/ductape/genome/blast.py   DuctApe(Download)
    def parseBlast(self, fileOut):
        '''Parse the xml blast output -- default file is self._out'''
        from Bio.Blast import NCBIXML
 
        if self._useDisk:

src/b/c/bcbio-phyloblast-0.1.2/bcbio/phylo/blast.py   bcbio-phyloblast(Download)
 
from Bio.Blast.Applications import NcbiblastpCommandline
from Bio.Blast import NCBIXML
from Bio import SeqIO
 

  1 | 2  Next