NAME

       centrifuge-inspect - inspecting the centrifuge index

SYNOPSIS

       centrifuge-inspect [options]* <cf_base>

DESCRIPTION

       Centrifuge version 1.0.3-beta by Daehwan Kim (infphilo@gmail.com, http://www.ccb.jhu.edu/people/infphilo)

       <cf_base>
              cf filename minus trailing .1.cf/.2.cf/.3.cf

              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 .cf (slow, preserves colors)

       --conversion-table Print conversion table

       --taxonomy-tree
              Print taxonomy tree

       --name-table
              Print names corresponding to taxonomic IDs

       --size-table
              Print the lengths of the sequences belonging to the same taxonomic ID

       -v/--verbose
              Verbose output (for debugging)

       -h/--help
              print detailed description of tool and its options

       --help print this usage message

AUTHOR

       This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage
       of the program.

centrifuge-inspect 1.0.3                          October 2021                             CENTRIFUGE-INSPECT(1)