.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.40.9.
.TH BOWTIE2-INSPECT "1" "June 2012" "bowtie2-inspect version 2.0.0-beta6" "User Commands"
.SH NAME
bowtie2-inspect \- extracts information from a bowtie2 index
.SH SYNOPSIS
.B bowtie2-inspect
[\fIoptions\fR]\fI* <bt2_base>\fR
.SH DESCRIPTION
Bowtie 2 version 2.0.0\-beta6 by Ben Langmead (blangmea@jhsph.edu)
.TP
<bt2_base>
bt2 filename minus trailing .1.bt2/.2.bt2
.IP
By default, prints FASTA records of the indexed nucleotide sequences to
standard out.  With \fB\-n\fR, just prints names.  With \fB\-s\fR, just prints a summary of
the index parameters and sequences.  With \fB\-e\fR, preserves colors if applicable.
.SH OPTIONS
.TP
\fB\-a\fR/\-\-across <int>
Number of characters across in FASTA output (default: 60)
.TP
\fB\-n\fR/\-\-names
Print reference sequence names only
.TP
\fB\-s\fR/\-\-summary
Print summary incl. ref names, lengths, index properties
.TP
\fB\-e\fR/\-\-bt2\-ref
Reconstruct reference from .bt2 (slow, preserves colors)
.TP
\fB\-v\fR/\-\-verbose
Verbose output (for debugging)
.TP
\fB\-h\fR/\-\-help
print detailed description of tool and its options
.TP
\fB\-\-help\fR
print this usage message
.PP
64\-bit
Built on lxcsid
Fri Jun  1 20:13:13 UTC 2012
Compiler: gcc version 4.7.0 (Debian 4.7.0\-8)
Options: \fB\-O3\fR \fB\-m64\fR \fB\-msse2\fR \fB\-funroll\-loops\fR \fB\-g3\fR
Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}