bowtie-inspect(1) extracts information from a bowtie index


bowtie-inspect [,options/],* <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.


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)
Print reference sequence names only
Print summary incl. ref names, lengths, index properties
Reconstruct reference from ebwt (slow, preserves colors)
Verbose output (for debugging)
print detailed description of tool and its options
print this usage message

64-bit Built on Debian-reproducible Wed, 25 May 2016 22:25:27 +0000 Compiler: gcc version 5.3.1 20160519 Options: -O3 -Wl,--hash-style=both -Wdate-time -D_FORTIFY_SOURCE=,2/ -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=,format-security/ -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=,format-security/ -fPIE -pie -Wl,-z,relro -Wl,-z,now Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8}