NAME¶
bowtie2-inspect-l - extracts information from a bowtie2 index
SYNOPSIS¶
bowtie2-inspect [
options]
* <bt2_base>
DESCRIPTION¶
No index name given! Bowtie 2 version 2.2.4 by Ben Langmead (langmea@cs.jhu.edu,
www.cs.jhu.edu/~langmea)
- <bt2_base>
- bt2 filename minus trailing .1.bt2l/.2.bt2l
- 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/--bt2-ref
- Reconstruct reference from .bt2l (slow, preserves colors)
- -v/--verbose
- Verbose output (for debugging)
- -h/--help
- print detailed description of tool and its options
- --help
- print this usage message
*** Warning *** 'boowtie2-inspect' was run directly. It is recommended to use
the wrapper script instead.
