Difference between revisions of "NMC - DSP"

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Developers mailinglist: <i>nmcdsp-devel[at]nic[dot]surfnet[dot]nl</i>.
 
Developers mailinglist: <i>nmcdsp-devel[at]nic[dot]surfnet[dot]nl</i>.
 
== Metabolomics data Processing Tool Chain ==
 
[ Based on the research at PRI-Wageningen ]
 
 
'''General procedure in metabolmics research:'''
 
 
                      Sample Harvesting
 
                              v
 
                          Extraction
 
                              v
 
                          Analysis
 
                              v
 
                      Data Processing
 
                              v
 
                    Statistical analysis
 
                              v
 
                Identification of metabolites
 
                              v
 
            Confirmation of validation of results
 
 
 
* [[NMC DSP data Processing Tool Chain]]
 
 
 
 
{|width="80%"  border="1" cellpadding="2" cellspacing="0"
 
|-
 
!Processing tool
 
!Major function
 
|-
 
|
 
      [[MetAlign]]
 
|<pre>
 
Tool for the analysis, alignment and comparison of Mass Spectrometry datasets.
 
</pre>
 
|-
 
|
 
 
      [[XCMS]]
 
|<pre>
 
XCMS is used for removal of experimental artifacts, clean up the data for
 
further analysis in the data processing and peak alignments.
 
</pre>
 
|-
 
|
 
 
|-
 
|
 
      [[METOT]]
 
|<pre>
 
pre-processing of MetAlign outputs  – removing irrelevant noisy information
 
and formatting data for the  next step
 
</pre>
 
|-
 
|
 
 
|-
 
|
 
      [[MSClust]]
 
|<pre>
 
deriving compound mass spectra by ion clustering, data reduction: from a few 
 
thousands of ions to a few hundreds of metabolites 
 
</pre>
 
|-
 
|
 
 
== External links ==
 
 
* [http://www.netherlandsmetabolomicscentre.nl Netherlands Metabolomics Centre homepage]
 
* [http://www.metware.org Metware.org, open source tool/framework for metabolomics research (repository, metadata, annotation, processing etc.)]
 
 
 
[[Category:Metabolomics]]
 

Revision as of 10:30, 13 August 2010

Netherlands Metabolomics Centre - Data Support Platform

Nmc logo.png

Discussion topics overview

Metabolomics software

For an overview of already available metabolomics (related) software, please visit the metabolomics software page.

Members overview

Technical information

Developers mailinglist: nmcdsp-devel[at]nic[dot]surfnet[dot]nl.