NAME
ktGetTaxInfo - explore hierarchical metagenomic data with zoomable pie charts
DESCRIPTION
Description:
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Retrieves taxonomy information for accessions or taxonomy IDs (as arguments or the first field of <stdin>, separated by whitespace). If the input is a number, it is assumed to be a taxonomy ID; otherwise it will be considered an accession or sequence ID containing an accession in the fourth field of pipe notation (e.g. "gi|12345|xx|ABC123.1|", ignoring fasta/fastq tag markers [>,@]). If taxonomy information was not found for a given input line, the output line will be only the taxonomy ID, which will be 0 if it was looked up from an accession but not found.
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Output fields are: taxID depth parent rank name
Usage:
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ktGetTaxInfo [IDs ...] [< ID_list] > tax_info
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Command line example:
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ktGetTaxInfo A00001.1 "gi|2|emb|A00002.1|" 9606
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Fasta tag example:
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grep ">" sequence.fasta | ktGetTaxInfo
OPTIONS
- [-p]
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Prepend tax info to the original lines (separated by tabs).
- [-a]
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Append tax info to the original lines (separated by tabs).
- [-f] <integer>
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Field of accessions. [Default: '1']
- [-tax <string>
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Path to directory containing a taxonomy database to use.