SYNOPSIS
bowtie2-inspect [,options/],* <bt2_base>/DESCRIPTION
Bowtie 2 version 2.2.9 by Ben Langmead ([email protected], www.cs.jhu.edu/~langmea)
- <bt2_base>
- bt2 filename minus trailing .1.bt2/.2.bt2
- 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/--bt2-ref
- Reconstruct reference from .bt2 (slow, preserves colors)
- -v/--verbose
- Verbose output (for debugging)
- -h/--help
- print detailed description of tool and its options
- --help
-
print this usage message