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ms2ms1Viz.jar 2010-10-28 96.0 MB
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example_yeast_QTOF_1764.sptxt 2010-10-28 2.3 MB
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README_DeLiberator_0.9.txt 2010-10-28 1.5 kB
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deliberator_0.9.jar 2010-10-28 3.5 MB
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userProperties.txt 2010-04-23 163 Bytes
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README_LibViz.txt 2010-04-23 692 Bytes
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libviz_0.1.1.jar 2010-04-23 67.4 MB
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Library2Slib.jar 2010-04-23 67.4 MB
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Totals: 8 Items   236.6 MB 0 
DeLiberator v0.9 README

1. About DeLiberator
  Deliberator creates decoy spectral library while shuffling target peptide sequences and repositioning the peaks. As input spectral library, file format .sptxt and .msp are available.

2. Download jar file
  Download deliberator_X.X.jar from Java Proteomic Library in SourceForge (http://sourceforge.net/projects/javaprotlib/files/)

3. execute jar file
  3.1 To run the tool with default setting
  # java -jar deliberator_X.X.jar {libFileName}
  [mandatory]
  libFileName: specify input file name of target library (available .sptxt or .msp file format)

  3.2 To run the tool with optional setting
  # java -jar deliberator.jar {libFileName} (-O{outputFileName}) (-ETD) (-Concat) (-tolP{value}) (-winP{value}) (-Dp{value}) (-Tag) (-h)
  [mandatory]
  libFileName: specify input file name of target library (available .sptxt or .msp file format)
  [optional]
  -O: specify output file name of .sptxt format (output file name becomes input file name + '_decoy' at the end of file as default)
  -ETD: set ETD mode for ETD data (CID mode as default)
  -Concat: create concatenated library (no concatenation as default)
  -tolP: precursor mass tolerant size (0 Da as default)
  -winP: window width of precursor filter (0 Da as default)
  -Dp: Dot-product score tolerant (range 0-1) for recreate spectra (dot-product score threshold is 0.7 as default)
  -Tag: put tag 'decoy_' at the head of each peptide (no tag as default)
  -h: show help
Source: README_DeLiberator_0.9.txt, updated 2010-10-28