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Category: Workflow Type: Taverna 2 Tag: proteomics User: Sonja Holl

Workflow X!Tandem and PeptideProphet on the Grid (1)

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The workflow performs the execution of X!Tandem and PeptideProphet from the TPP toolbox on the Grid. The execution is performed by the UNICORE Plugin for Taverna. mzXMLDecomposer/Composer is used to run the execution of X!Tandem in parallel. extract_values extract relevant information from thetandem.interact.pep.xml File. The file can then remain on the remote storage.

Created: 2013-08-13 | Last updated: 2013-09-04

Credits: User Sonja Holl User Yassene User Magnus Palmblad

Attributions: Workflow de Bruin et al. Workflow 1 Workflow Cloud Parallel Processing of Tandem Mass Spectrometry Based Proteomics Data: X!Tandem

Workflow Optimization of retention time prediction (1)

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The workflow uses RTCalc from the TPP toolbox to perform two different retention time predictions. The third branch uses a linear retention time predictor (Palmblad et al., 2002). The workflow has a flag that switches on a specific branch.

Created: 2013-08-13 | Last updated: 2013-09-04

Credits: User Sonja Holl User Yassene User Magnus Palmblad

Attributions: Workflow Retention Time Prediction with X!Tandem

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