NAME

       tandemwrapper          —              run  X!Tandem  given  its parameter file and path to
       X!Tandem software

SYNOPSIS

       tandemwrapper [options]  [filename ...]

DESCRIPTION

       This manual page documents briefly the tandemwrapper software.

       This program can  be  used  to  run  X!Tandem  on  data  from  Bruker's  timsTOF  line  of
       instruments. It can also run X!Tandem on modern mzML files (any kind of compression type)

OPTIONS

       -h | --help
                 Displays detailed usage information and exits.

       -v | --version
                 Print the version of the software program.

       --tandem  Full path to the X!Tandem executable file (tandem or tandem.exe).

       -t | --tmp
                 Optionally set the temporary directory to store temporary data.

       filename  X!Tandem     parameter    file    (see    the    X!Tandem    documentation    on
                 https://www.thegpm.org/TANDEM/.

Bibliographic reference to be cited

       Langella  O,  Valot  B,  Balliau  T,  Blein-Nicolas  M,  Bonhomme  L,   Zivy   M.   (2017)
       X!TandemPipeline:  A  Tool  to  Manage  Sequence  Redundancy  for  Protein  Inference  and
       Phosphosite Identification. J. Proteome Res., 2 (16) 494-503

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