view release on metacpan or  search on metacpan

README  view on Meta::CPAN

                                  Choices: Perl, Jellyfish.
          kmerlength|k 21         Kmer length
          numcpus      1          This module uses perl 
                                  multithreading with pure perl or 
                                  can supply this option to other 
                                  software like jellyfish.
          gt           1          If the count of kmers is fewer 
                                  than this, ignore the kmer. This 
                                  might help speed analysis if you 
                                  do not care about low-count kmers.
          sample       1          Retain only a percentage of kmers.
                                  1 is 100%; 0 is 0%
                                  Only works with the perl kmer counter.
          verbose      0          Print more messages.

          Examples:
          my $kmer=Bio::Kmer->new("file.fastq.gz",{kmercounter=>"jellyfish",numcpus=>4});

    $kmer->ntcount()
        Returns the number of base pairs counted. In some cases such as when
        counting with Jellyfish, that number is not calculated; instead the

README.pod  view on Meta::CPAN

                          Choices: Perl, Jellyfish.
  kmerlength|k 21         Kmer length
  numcpus      1          This module uses perl 
                          multithreading with pure perl or 
                          can supply this option to other 
                          software like jellyfish.
  gt           1          If the count of kmers is fewer 
                          than this, ignore the kmer. This 
                          might help speed analysis if you 
                          do not care about low-count kmers.
  sample       1          Retain only a percentage of kmers.
                          1 is 100%; 0 is 0%
                          Only works with the perl kmer counter.
  verbose      0          Print more messages.

  Examples:
  my $kmer=Bio::Kmer->new("file.fastq.gz",{kmercounter=>"jellyfish",numcpus=>4});

=back

lib/Bio/Kmer.pm  view on Meta::CPAN

                          Choices: Perl, Jellyfish.
  kmerlength|k 21         Kmer length
  numcpus      1          This module uses perl 
                          multithreading with pure perl or 
                          can supply this option to other 
                          software like jellyfish.
  gt           1          If the count of kmers is fewer 
                          than this, ignore the kmer. This 
                          might help speed analysis if you 
                          do not care about low-count kmers.
  sample       1          Retain only a percentage of kmers.
                          1 is 100%; 0 is 0%
                          Only works with the perl kmer counter.
  verbose      0          Print more messages.

  Examples:
  my $kmer=Bio::Kmer->new("file.fastq.gz",{kmercounter=>"jellyfish",numcpus=>4});

=back

=cut