AssemblePairs.py - Assembles paired-end reads into a single sequence

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

AssemblePairs.py 0.6.0                              May 2020                                 ASSEMBLEPAIRS.PY(1)

       usage: AssemblePairs.py [--version] [-h]  ...

       Assembles paired-end reads into a single sequence

   help:--version
              show program's version number and exit

       -h, --help
              show this help message and exit

   subcommands:
              Assembly method

       align  Assemble pairs by aligning ends.

       join   Assemble pairs by concatenating ends.

              reference

              Assemble pairs by aligning reads against a reference database.

              sequential

              Assemble pairs by first attempting de novo assembly, then reference guided assembly.

   outputfiles:
              assemble-pass

              successfully assembled reads.

              assemble-fail

              raw reads failing paired-end assembly.

   outputannotationfields:
              <user defined>

              annotation fields specified by the --1f or --2f arguments.

       AssemblePairs.py - Assembles paired-end reads into a single sequence