BOWTIE2-INSPECT

NAME

bowtie2-inspect - wrapper for bowtie2-inspect-* index

SYNOPSIS

bowtie2-inspect [options]* <bt2_base>

DESCRIPTION

Bowtie 2 version 2.5.0 by Ben Langmead (langmea@cs.jhu.edu, www.cs.jhu.edu/˜langmea)
<bt2_base>

bt2 filename minus trailing .1.bt2/.2.bt2

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.

OPTIONS

--large-index

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

--debug

use the debug binary; slower, assertions enabled

--verbose

log the issued command

-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

-o/--output

Save output to filename (default stdout)

-v/--verbose

Verbose output (for debugging)

-h/--help

print this and message quit