BlibDecoy

Description:  Create a library containing decoy spectrum (randomized versions of real spectra).

Usage: BlibDecoy [options]  <initial library>  <output library>

Input:

• <initial library> - An exising library of experimentally derived spectra.
• <output library> - A new library containg decoy versions of the spectra in the existing library

Output:  A spectral library containing decoy spectra

Options:  

• -decoyOnly - Do not inclue the real spectra from the initial library output library.
• -merge - Use the merge and split method of creating decoys
• -shift n - Use the peak-shift method of creating decoys. The m/z value of every peak is changed to m/z + n.
• -shiftUpDown n - Use the peak-shift method of creating decoys. The m/z value of every peak is changed to m/z + n with probability 0.5 or changed to m/z - n with equal probabiltiy.
• -decoyPerReal n - Create n decoy spectra for each real spectrum. Note that with option -shift this creates n identical decoy spectra.
• -verbose 0|1|2 - Set the verbosity level of the output to stderr. Default is ?

To Do:

• implement options. Only merge, decoyOnly, and shift n options currently work
• use long options