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Ken-Kuroki/read_blast_output.py

Created August 2, 2018 09:44
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Read a BLAST output and generate a pandas dataframe
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read_blast_output.py
import pandas as pd
def read_blast_output(output):
"""Reads BLAST output (outfmt 6) and returns a pandas dataframe."""
return pd.read_csv(output,
sep="\t",
names=["qseqid", "sseqid", "pident", "length", "mismatch", "gapopen", "qstart", "qend", "sstart", "send", "evalue", "bitscore"],
index_col="qseqid")
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