Parsing online blast results using NCBIXML returns 50 alignments per Blast.Record object
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3.4 years ago

I would like to ask if it is possible that NCBIXML.parse() function returns Blast record objects (one object for a sequence) which contains a MAXIMUM of 50 alignments?

python parsing biopython NCBIXML • 747 views
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Hello aleksanderczeszyk,

could you please go more into details of what you are trying to do and why?

The aligments within the Blast record objects are in a list. So you can use the slice syntax to truncate them (if this is what you like to do.

from Bio.Blast import NCBIXML

with open("blast.xml") as b:
    for record in NCBIXML.parse(b):
            record.alignments = record.alignments[:50]

fin swimmer

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