Man page - bowtie-inspect-debug(1)

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Manual

BOWTIE-INSPECT

NAME
SYNOPSIS
DESCRIPTION
OPTIONS

NAME

bowtie-inspect - extracts information from a bowtie index

SYNOPSIS

bowtie-inspect [ options ] * <ebwt_base>

DESCRIPTION

<ebwt_base>

ebwt filename minus trailing .1.ebwt/.2.ebwt

By default, prints FASTA records of the indexed nucleotide sequences to standard out. With -n , just prints names. With -s , just prints a summary of the index parameters and sequences. With -e , preserves colors if applicable.

OPTIONS

--large-index

force inspection of the ’large’ index, even if a ’small’ one is present.

-a /--across <int>

Number of characters across in FASTA output (default: 60)

-n /--names

Print reference sequence names only

-s /--summary

Print summary incl. ref names, lengths, index properties

-e /--ebwt-ref

Reconstruct reference from ebwt (slow, preserves colors)

-v /--verbose

Verbose output (for debugging)

-h /--help

print detailed description of tool and its options

--help

print this usage message

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