TPP:Supported Search Engines

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(supported search engines)
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==supported search engines== ==supported search engines==
-The TPP now officially works with these major search engines:+The TPP now officially works with these search engines:
-[[TPP:Sequest and the TPP|Sequest]]+===COMET===
 +[http://comet-ms.sourceforge.net/ COMET] open-source database search engine provided with TPP (as of version 4.7.1)
-[[TPP:Mascot and the TPP|Mascot]]+===[[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:X!Tandem and the TPP|X!Tandem]]+===[[TPP:Sequest and the TPP|SEQUEST]]===
 +[http://fields.scripps.edu/sequest/ SEQUEST] is a commercial search engine, currently sold by Thermo.
-[[TPP:Phenyx and the TPP|Phenyx]]+===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

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.

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