NAME

       scftool - provides a set of tools useful when working with SCF trace files.

SYNOPSIS

              scftool <toolname> <tool parameters>

OPTIONS

       Available tools:

       convert
              Cuts the given range out of an SCF file and makes a new SCF out of it.

              To get help more specific help please type scftool convert

       cut    Cuts a given range of a SCF file into a new SCF file.

       remix  Combines  trace information of a SCF file with new bases, qualities and peak values
              (either in FASTA or PHD format) into a new SCF file.

EXAMPLES

       Example for cut:

              scftool cut infile lower_base_bound upper_base_bound outfile

       Usage of remix (when using PHD files as input for bases, quals and peaks):

              scftool remix scf_infile phd_infile scf_outfile

       Usage of remix (when using FASTA files as input for bases, quals and peaks):

              scftool remix scf_infile bases_infile quals_infile peaks_infile scf_outfile

SEE ALSO

       A more extensive documentation is provided in the mira-doc package and  can  be  found  at
       /usr/share/doc/mira-assembler/DefinitiveGuideToMIRA.html.

       You can also subscribe one of the MIRA mailing lists at

              http://www.chevreux.org/mira_mailinglists.html

       After subscribing, mail general questions to the MIRA talk mailing list:

              mira_talk@freelists.org

BUGS

       To report bugs or ask for features, please use the new ticketing system at:

              http://sourceforge.net/apps/trac/mira-assembler/

AUTHOR

       The author of the mira code is Bastien Chevreux <bach@chevreux.org>

       This  manual  page  was written by Andreas Tille <tille@debian.org> but can be freely used
       for any other distribution.