Mercurial > repos > pieterlukasse > prims_proteomics
diff quantifere.xml @ 17:40ec8770780d
* Added support for pepxml (and more specifically for
ProteomeDiscoverer 1.4). Tested with ProteomeDiscoverer 1.4 pepxml.
* Improved HTML report of NapQ tool.
* Fixed issue that was preventing SEDMAT matching from running
in parallel/multi-threaded.
| author | pieter.lukasse@wur.nl |
|---|---|
| date | Mon, 14 Apr 2014 17:11:33 +0200 |
| parents | d1edc7971d48 |
| children | d31c6978d9d0 |
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--- a/quantifere.xml Fri Mar 28 14:43:46 2014 +0100 +++ b/quantifere.xml Mon Apr 14 17:11:33 2014 +0200 @@ -1,4 +1,4 @@ -<tool name="Quantifere" id="quantifere1" version="1.0.2"> +<tool name="Quantifere" id="quantifere1" version="1.0.3"> <description>Protein Inference by Peptide Quantification patterns</description> <!-- For remote debugging start you listener on port 8000 and use the following as command interpreter: @@ -61,7 +61,7 @@ </when> </conditional> - <param name="statisticalMeasuresConfig" type="text" area="true" size="6x70" label="Statistical measures configuration" + <param name="statisticalMeasuresConfig" type="text" area="true" size="8x70" label="Statistical measures configuration" help="Here you may specify the statistical measures that are found in the ms/ms results (e.g. p or e-values). The format is: SM alias => SM name,type,mode[min/max]. Leaving this configuration out while these are present in the dataset will have the effect that they will be wrongly used as a regular scoring scheme, having effect on for example @@ -70,6 +70,9 @@ 
pvCSVEX => p_value,CSV_EXPORT,min 
smAUTO_LIKELIHOOD => AUTOMOD_LOGLIKELIHOOD,PLGS/Auto-mod,max 
smLIKELIHOOD => LOGLIKELIHOOD,PLGS/Databank-search,max +
smPercoProb => Percolator: probability,Percolator probability,max +
smPercoPEP => Percolator: PEP,Percolator PEP,min +
smPercoQval => Percolator: q-Value,Percolator q-Value,max "/> <!-- keep value attribute above aligned like this to avoid white spaces in the value --> <param name="quantificationDataToUse" type="select"