NanoSV - structural variant caller for the Nanopore

       usage: NanoSV [-h] [-t THREADS] [-s SAMBAMBA] [-c CONFIG] [-b BED] [-o OUTPUT]

              [-f SNP_FILE] [-v] bam

       Put here a description.

   positionalarguments:
       bam    /path/to/file.bamoptions:-h, --help
              show this help message and exit

       -t THREADS, --threads THREADS
              Number of threads [default: 4]

       -s SAMBAMBA, --sambamba SAMBAMBA
              Give the full path to the sambamba or samtools executable [default: sambamba ]

       -c CONFIG, --config CONFIG
              Give the full path to your own ini file [ default: config.ini ]

       -b BED, --bed BED
              Give  the  full  path  to  your  own  bed  file,  used  for  coverage depth calculations [default:
              human_hg19.bed ]

       -o OUTPUT, --output OUTPUT
              Give the full path to the output vcf file [default: <stdout> ]

       -f SNP_FILE, --snp_file SNP_FILE
              Give full path to the SNP variant file for phasing.  Supporting file formats: BED and VCF

       -v, --version
              show program's version number and exit

       NanoSV - structural variant caller for the Nanopore

       The full documentation for NanoSV is maintained as a Texinfo manual.  If the info and NanoSV programs are
       properly installed at your site, the command

              infoNanoSV

       should give you access to the complete manual.

NanoSV 1.2.4                                      December 2024                                        NANOSV(1)