TPP:Supported Search Engines

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Revision as of 21:41, 15 October 2014 Dshteynb (Talk | contribs) (→supported search engines) ← Previous diff		Current revision Dshteynb (Talk | contribs) (→supported search engines)
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	==supported search engines==		==supported search engines==
	The TPP now officially works with these search engines:		The TPP now officially works with these search engines:
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-	Compatible search engines:
	===COMET===		===COMET===
	[http://comet-ms.sourceforge.net/ COMET] open-source database search engine provided with TPP (as of version 4.7.1)		[http://comet-ms.sourceforge.net/ COMET] open-source database search engine provided with TPP (as of version 4.7.1)
-	===X!Tandem===	+	===[[TPP:X!Tandem and the TPP|X!Tandem]]===
	[http://www.thegpm.org/TANDEM/ X!Tandem] is a open-source, free search engine. X!Tandem with the K-Score plugin is now distributed as part of the Windows TPP (as of version 3.2.1).		[http://www.thegpm.org/TANDEM/ X!Tandem] is a open-source, free search engine. X!Tandem with the K-Score plugin is now distributed as part of the Windows TPP (as of version 3.2.1).
-	===SEQUEST===	+	===[[TPP:Sequest and the TPP|SEQUEST]]===
	[http://fields.scripps.edu/sequest/ SEQUEST] is a commercial search engine, currently sold by Thermo.		[http://fields.scripps.edu/sequest/ SEQUEST] is a commercial search engine, currently sold by Thermo.
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	===Inspect===		===Inspect===
	[http://proteomics.ucsd.edu/software-tools/inspectms-alignment/ Inspect]		[http://proteomics.ucsd.edu/software-tools/inspectms-alignment/ Inspect]
		+
		+	===OMSSA===
		+	[http://www.ncbi.nlm.nih.gov/Web/Newsltr/V14N2/index.html OMSSA]
	===MyriMatch===		===MyriMatch===
	[http://forge.fenchurch.mc.vanderbilt.edu/scm/viewvc.php/*checkout*/trunk/doc/index.html?root=myrimatch MyriMatch] open-source tandem mass spectral peptide identification by multivariate hypergeometric analysis		[http://forge.fenchurch.mc.vanderbilt.edu/scm/viewvc.php/*checkout*/trunk/doc/index.html?root=myrimatch MyriMatch] open-source tandem mass spectral peptide identification by multivariate hypergeometric analysis
-	===ProbID===	+	===[[TPP:ProbID and the TPP|ProbID]]===
	[[Software:ProbID|ProbID]]is an open-source, freely-available SPC developed search engine.		[[Software:ProbID|ProbID]]is an open-source, freely-available SPC developed search engine.
-	===Mascot===	+	===[[TPP:Mascot and the TPP|Mascot]]===
	[http://www.matrixscience.com/ Mascot] is a commercial search engine, distributed by Matrix Science.		[http://www.matrixscience.com/ Mascot] is a commercial search engine, distributed by Matrix Science.
-	===Phenyx===	+	===[[TPP:Phenyx and the TPP|Phenyx]]===
	[http://www.phenyx-ms.com/ Phenyx] is a commercial search engine.		[http://www.phenyx-ms.com/ Phenyx] is a commercial search engine.
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-	[[TPP:Sequest and the TPP|Sequest]]
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-	[[TPP:Mascot and the TPP|Mascot]]
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-	[[TPP:ProbID and the TPP|ProbID]]
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-	[[TPP:X!Tandem and the TPP|X!Tandem]]
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-	[[TPP:Phenyx and the TPP|Phenyx]]

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Current revision

Contents 1 what is a search engine? 2 supported search engines 2.1 COMET 2.2 X!Tandem 2.3 SEQUEST 2.4 MSGF+ 2.5 Inspect 2.6 OMSSA 2.7 MyriMatch 2.8 ProbID 2.9 Mascot 2.10 Phenyx

what is a search engine?

In this context, a "search engine" is a tool that attempts to assign a peptide sequence to a MS/MS (or MS2) spectra.

supported search engines

The TPP now officially works with these search engines:

COMET

COMET open-source database search engine provided with TPP (as of version 4.7.1)

X!Tandem

X!Tandem is a open-source, free search engine. X!Tandem with the K-Score plugin is now distributed as part of the Windows TPP (as of version 3.2.1).

SEQUEST

SEQUEST is a commercial search engine, currently sold by Thermo.

MSGF+

MSGF+

Inspect

Inspect

OMSSA

OMSSA

MyriMatch

MyriMatch open-source tandem mass spectral peptide identification by multivariate hypergeometric analysis

ProbID

ProbIDis an open-source, freely-available SPC developed search engine.

Mascot

Mascot is a commercial search engine, distributed by Matrix Science.

Phenyx

Phenyx is a commercial search engine.