bowtie2-inspect - wrapper for bowtie2-inspect-* index
bowtie2-inspect [
options]
* <bt2_base>
Bowtie 2 version 2.5.0 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.
- --large-index
- force inspection of the 'large' index, even if a 'small'
one is present.
- --debug
- use the debug binary; slower, assertions enabled
- --verbose
- log the issued command
-
-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
-
-o/--output
- Save output to filename (default stdout)
-
-v/--verbose
- Verbose output (for debugging)
-
-h/--help
- print this and message quit