NanoLyse - remove lambda phage reads from a fastq file

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

NanoLyse 1.1.1                                      June 2020                                        NANOLYSE(1)

       Remove reads mapping to the lambda genome. Reads fastq from stdin and writes to stdout.

              gunzip   -c   reads.fastq.gz   |   NanoLyse  |  gzip  >  reads_without_lambda.fastq.gz  gunzip  -c
              reads.fastq.gz | NanoLyse | NanoFilt -q 12 | gzip > filtered_reads_without_lambda.fastq.gz  gunzip
              -c reads.fastq.gz | NanoLyse --reference mygenome.fa.gz | gzip > reads_without_mygenome.fastq.gz

       NanoLyse - remove lambda phage reads from a fastq file

optionalarguments:-r, --reference REFERENCE
              Specify a reference fasta file against which to filter.

       --logfile LOGFILE
              Specify the path and filename for the log file.

   Generaloptions:-h, --help
              show the help and exit

       -v, --version
              Print version and exit.

NanoLyse [-h] [-v] [-r REFERENCE] [--logfile LOGFILE]