NAME

       placnet - Plasmid Constellation Network project

DESCRIPTION

       Placnet  is  a new tool for plasmid analysis in NGS projects. Placnet is optimized to work
       with Illumina sequences but it also works with  454,  Iontorrent  or  any  of  the  actual
       sequence technologies.

       The input of placnet is a set of contigs and one or more SAM files with the mapping of the
       reads against the contigs. Placnet obtains a set of  files,  easily  opened  on  Cytoscape
       software or other network tools.

OPTIONS

       Write inputFile Template

       placnet -generate

       Network process

       placnet -f inputFile.txt -p prefix -l min

       -f=s   Input file for PLACNET analysis.

       -p=s   Prefix name for output files (default 'placnet').

       -l=s   Minimun contig length to scaffold process (default '200').

SEE ALSO

       Lanza  VF,  de  Toro  M,  Garcill??n-Barcia  MP, Mora A, Blanco J, Coque TM, de la Cruz F:
       Plasmid Flux in Escherichia coli ST131  Sublineages,  Analyzed  by  Plasmid  Constellation
       Network  (PLACNET),  a  New Method for Plasmid Reconstruction from Whole Genome Sequences.
       PLoS Genet 2014, 10:e1004766