.\" DO NOT MODIFY THIS FILE!  It was generated by help2man 1.49.3.
.TH BOWTIE-INSPECT "1" "January 2024" "bowtie-inspect version 1.3.1" "User Commands"
.SH NAME
bowtie-inspect \- extracts information from a bowtie index
.SH SYNOPSIS
.B bowtie-inspect
[\fI\,options\/\fR]\fI\,* <ebwt_base>\/\fR
.SH DESCRIPTION
.TP
<ebwt_base>
ebwt filename minus trailing .1.ebwt/.2.ebwt
.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\-\-large\-index\fR
force inspection of the 'large' index, even if a
\&'small' one is present.
.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/\-\-ebwt\-ref
Reconstruct reference from ebwt (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 Debian\-reproducible
Thu, 25 Jan 2024 12:27:31 +0100
Compiler: gcc version 13.2.0
Options: \fB\-O3\fR \fB\-Wl\fR,\-\-hash\-style=both \fB\-DPOPCNT_CAPABILITY\fR \fB\-Wdate\-time\fR \fB\-D_FORTIFY_SOURCE\fR=\fI\,2\/\fR \fB\-g\fR \fB\-O2\fR \fB\-ffile\-prefix\-map=\fR.=. \fB\-fstack\-protector\-strong\fR \fB\-fstack\-clash\-protection\fR \fB\-Wformat\fR \fB\-Werror\fR=\fI\,format\-security\/\fR \fB\-fcf\-protection\fR  \fB\-g\fR \fB\-O2\fR \fB\-ffile\-prefix\-map=\fR.=. \fB\-fstack\-protector\-strong\fR \fB\-fstack\-clash\-protection\fR \fB\-Wformat\fR \fB\-Werror\fR=\fI\,format\-security\/\fR \fB\-fcf\-protection\fR \fB\-std\fR=\fI\,c\/\fR++03 \fB\-Wl\fR,\-z,relro \fB\-Wl\fR,\-z,now
Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}