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Revision as of 22:44, 11 September 2007
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(updating links for data formats)
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The SPC is committed to providing open-source, free software to support proteomics research. The The SPC is committed to providing open-source, free software to support proteomics research. The
[[Software:Overview| SPC Software Overview]] page lists (almost) all of the open-source software projects produced at the SPC. Major projects: [[Software:Overview| SPC Software Overview]] page lists (almost) all of the open-source software projects produced at the SPC. Major projects:
-* '''TPP''': our proteomics pipeline software is described on the [[TPP:Documentation|Trans-Proteomic Pipeline (TPP) Overview]] page.+* '''[[TPP:Documentation|TPP]]''': our proteomics pipeline software is described on the [[TPP:Documentation|Trans-Proteomic Pipeline (TPP) Overview]] page.
* '''[[Formats:Overview|Open Data Formats]]''': You can learn more about the SPC-developed open-formats, which include [[Formats:mzXML|mzXML]], [[Formats:pepXML|pepXML]], and [[Formats:protXML|protXML]], on the [[Formats:Overview|Formats]] page. * '''[[Formats:Overview|Open Data Formats]]''': You can learn more about the SPC-developed open-formats, which include [[Formats:mzXML|mzXML]], [[Formats:pepXML|pepXML]], and [[Formats:protXML|protXML]], on the [[Formats:Overview|Formats]] page.
* [[Software:SBEAMS|SBEAMS Project]]: SPC's high-powered LIMS database system. * [[Software:SBEAMS|SBEAMS Project]]: SPC's high-powered LIMS database system.

Revision as of 22:45, 11 September 2007

Seattle Proteome Center Software Tools Wiki

Welcome to the Seattle Proteome Center (SPC) software tools wiki. This wiki is primarily intended as means of sharing user documentation for the SPC tools. We encourage outside contribution, but please make your edits responsibly.

  • To edit or create pages, log in before you start editing pages. Thanks!
  • The tools change rapidly, so make a note of what version you are using if you edit information.

Latest TPP version: 3.2.1 (June 20, 2007)

News:

  • New wiki accounts are temporarily disabled. Due to high levels of spam we've temporarily halted creation of new accounts. We will open the wiki again when we have stronger anti-spam measures in place. In the meanwhile, anyone who wants an account can contact Josh (you should be able to find email contact through the spctools-discuss newsgroup website, see below.)
  • For developers: The Sashimi project has migrated to Subversion (SVN) from CVS. Please see the spctools-discuss newsgroup for more info.
  • The Windows/Cygwin TPP distribution now includes X!Tandem with the K-Score plugin! While the PeptideProphet model is still undergo refinement, this brings us closer to offering a completely open-source, free proteomics solution!

SPC Software

The SPC is committed to providing open-source, free software to support proteomics research. The SPC Software Overview page lists (almost) all of the open-source software projects produced at the SPC. Major projects:

Links

SPC Links

Non-SPC, related links

Wiki Guidlines

  1. These tools change rapidly. Please include the version when describing anything.
  2. These pages should not be used to report bugs. Please use the appropriate support avenues

Refer to MediaWiki user's guide for an introduction to formatting and editing pages.

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