NAME

       existDB - management of existDB files

SYNOPSIS

       existDB [-mersize mersize] -build some.fasta prefix

       existDB -describe prefix

       existDB -testfiles some.fasta prefix

       existDB -testexistence some.fasta

       existDB -testexhaustive some.fasta some.meryl

DESCRIPTION

       This program is part of libkmer.

OPTIONS

       -mersize mersize
              Use the specified mersize when building existDB tables.

       -build some.fasta prefix
              Build an existDB on all mers in some.fasta and save the tables into prefix.

       -describe prefix
              Reports the state of some existDB file.

       -testfiles some.fasta prefix
              Build  an existDB table from some.fasta.  Write that table to disk.  Load the table
              back.  Compare that each mer in some.fasta is present in all three  existDB  tables
              created earlier.

       -testexistence some.fasta
              Build  an  existDB table from some.fasta, check that every mer in some.fasta can be
              found in the table.  Does not guarantee that every mer in the table is found in the
              file.

       -testexhaustive some.fasta some.meryl
              Build  an existDB table from some.fasta, check _EVERY_ mer for existence.  Complain
              if a mer exists in the table but not in the meryl(1) database.  Assumes  some.meryl
              is the mercount of some.fasta.

SEE ALSO

       meryl(1), positionDB(1)