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 Debian-reproducible Thu, 25 Jan 2024 12:27:31 +0100 Compiler: gcc version 13.2.0 Options: -O3 -Wl,--hash-style=both -DPOPCNT_CAPABILITY -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=.=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=.=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -std=c++03 -Wl,-z,relro -Wl,-z,now Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}