BOWTIE-INSPECT(1) User Commands BOWTIE-INSPECT(1)
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
-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 wr-linux02 Tue Apr 24 11:37:43 UTC 2012 Compiler: gcc version 4.6.3 (Debian 4.6.3-4) Options: -O3 -Wl,--hash-style=both
-D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -g -O2
-fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro Sizeof {int, long, long long,
void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}
bowtie-inspect version 0.12.7 April 2012 BOWTIE-INSPECT(1)