TPP:Supported Search Engines

From SPCTools

Revision as of 04:55, 3 August 2006 Jtasman (Talk | contribs) ← Previous diff		Current revision Dshteynb (Talk | contribs) (→supported search engines)
Line 1:		Line 1:
-	[[sequest]]	+	==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.
-	[[mascot]]	+	==supported search engines==
		+	The TPP now officially works with these search engines:
		+
		+	===COMET===
		+	[http://comet-ms.sourceforge.net/ COMET] open-source database search engine provided with TPP (as of version 4.7.1)
		+
		+	===[[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).
		+
		+	===[[TPP:Sequest and the TPP|SEQUEST]]===
		+	[http://fields.scripps.edu/sequest/ SEQUEST] is a commercial search engine, currently sold by Thermo.
		+
		+	===MSGF+===
		+	[http://proteomics.ucsd.edu/software-tools/ms-gf/ MSGF+]
		+
		+	===Inspect===
		+	[http://proteomics.ucsd.edu/software-tools/inspectms-alignment/ Inspect]
		+
		+	===OMSSA===
		+	[http://www.ncbi.nlm.nih.gov/Web/Newsltr/V14N2/index.html OMSSA]
		+
		+	===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
		+
		+	===[[TPP:ProbID and the TPP|ProbID]]===
		+	[[Software:ProbID|ProbID]]is an open-source, freely-available SPC developed search engine.
		+
		+	===[[TPP:Mascot and the TPP|Mascot]]===
		+	[http://www.matrixscience.com/ Mascot] is a commercial search engine, distributed by Matrix Science.
		+
		+	===[[TPP:Phenyx and the TPP|Phenyx]]===
		+	[http://www.phenyx-ms.com/ Phenyx] is a commercial search engine.

---

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.