[Biopython] NCBIXML.parse

Mic mictadlo at gmail.com
Thu May 16 00:57:12 EDT 2013


Hi,
Why does NCBIXML.parse attach UR090 to the UniRef90 ids and as results I
get is UR090:UniRef90_Q9FX16 with the following code:

    with open("x.blastp.xml") as bf:
        blast_records = NCBIXML.parse(bf)

        for blast_record in blast_records:
            query_name = blast_record.query
            for alignment in blast_record.alignments:
                hit_id = alignment.hit_id

Is it possible to remove UR090 or maybe it should be UR090:Q9FX16?

Is UR090:UniRef90_Q9FX16 compatible Gbrowse2?

Thank you in advance.

Mic


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