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

       64-bit  Built  on  lgw01-11  Thu  Nov  26  11:13:31 UTC 2015 Compiler: gcc version 5.2.1 20151123 (Ubuntu
       5.2.1-25ubuntu1) Options: -O3  -Wl,--hash-style=both -D_FORTIFY_SOURCE=2 -g -O2  -fstack-protector-strong
       -Wformat   -Werror=format-security   -g  -O2  -fstack-protector-strong  -Wformat  -Werror=format-security
       -Wl,-Bsymbolic-functions -Wl,-z,relro Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8,  8,  8,
       8, 8}

bowtie-inspect version 1.1.2                      November 2015                                BOWTIE-INSPECT(1)