Mayu

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-	Mayu, developed by Lukas Reiter at ETH, calculates decoy-based false discovery rates (FDRs) for proteomics experiments. FDR is calculated at the level of peptide-spectrum match (PSM), peptide identification, and protein identification. Protein length and possibly other attributes are taken into account.	+	The content formerly on this page was incorporated on July 18, 2009 into [[Software:Mayu | Software:Mayu]].
-		+
-	Mayu is not yet shipped with the TPP as of July 2009. It has to be installed	+
-	separately. You can either download it from here:	+
-	http://prottools.ethz.ch/muellelu/web/LukasReiter/Mayu/	+
-	... or you can run it on our regis cluster at ISB. My understanding is	+
-	that everyone in Ruedi's group is entitled to an account on regis.	+
-		+
-	If you use regis, then Mayu is run automatically on iProphet results	+
-	any time you use one of the scripts stored in /regis/sbeams/bin, such	+
-	as /regis/sbeams/bin/tandem/runtandemsearch. Those scripts ultimately	+
-	call another script, /regis/sbeams/bin/MayuPepXML.csh, to run Mayu.	+
-	MayuPepXML.csh can be run on its own on either a PeptideProphet or an	+
-	iProphet file. Mayu processes PSMs (peptide-spectrum matches) and thus	+
-	it does not make sense to run Mayu on ProteinProphet output.	+
-		+
-	All of this assumes that you are familiar running the TPP from the	+
-	unix/linux command line. Mayu is not yet accessible via Petunia.	+

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Current revision

The content formerly on this page was incorporated on July 18, 2009 into Software:Mayu.