Software:Prequips
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| [[Image:Prequips_icon.png|thumb|Prequips logo.]] | [[Image:Prequips_icon.png|thumb|Prequips logo.]] | ||
| - | Prequips is a software environment for integration, visualization and analysis of LC-MS/MS data. | + | '''Prequips''' is a software environment for integration, visualization and analysis of LC-MS/MS data. |
| - | *Integration*: The software is capable of integrating mass spectrometry data at the raw data, peptide and protein level. Furthermore, this data can be linked to other data types such as microarray data or sequence information. Currently data can be read from mzXML, pepXML, Bioworks (tabular), and protXML files. | + | ''Integration'': The software is capable of integrating mass spectrometry data at the raw data, peptide and protein level. Furthermore, this data can be linked to other data types such as microarray data or sequence information. Currently data can be read from mzXML, pepXML, Bioworks (tabular), and protXML files. |
| - | *Visualization*: Prequips includes tabular data viewers as well as spectrum and chromatogram plots. It also provides an overview of the data as a 2-D gel-like image, which is a essential tool for quality control. All visualizations are interactive and linked to each other, making visual data exploration straightforward. | + | ''Visualization'': Prequips includes tabular data viewers as well as spectrum and chromatogram plots. It also provides an overview of the data as a 2-D gel-like image, which is a essential tool for quality control. All visualizations are interactive and linked to each other, making visual data exploration straightforward. |
| - | *Analysis*: Through implementation of the Gaggle interface [http://gaggle.systemsbiology.net] mass spectrometry data can be exchanged with programs such as Cytoscape, TIGR MeV, R and Firefox. This enables analysis and interactive exploration of large heterogeneous data sets without manual data conversion. | + | ''Analysis'': Through implementation of the Gaggle interface [http://gaggle.systemsbiology.net] mass spectrometry data can be exchanged with programs such as Cytoscape, TIGR MeV, R and Firefox. This enables analysis and interactive exploration of large heterogeneous data sets without manual data conversion. |
| Prequips is written in Java and based on the Eclipse Rich Client platform. It runs on all operating systems supporting Java 1.5 or later. | Prequips is written in Java and based on the Eclipse Rich Client platform. It runs on all operating systems supporting Java 1.5 or later. | ||
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| - | '''The [[Software:Prequips:Inclusion List Builder| Inclusion List Builder]] extension for Prequips facilitates directed LC-MS/MS analyses.''' | ||
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| - | == More == | ||
| - | # [[Prequips:FAQ|FAQ]] is the recommened source of information for users. | ||
| - | # [[Prequips:Bugs|Bugs]] is where you can post your bug reports. | ||
| - | # [[Prequips:Wishlist|Wishlist]] is self-explanatory. | ||
Revision as of 22:38, 23 October 2008
Prequips is a software environment for integration, visualization and analysis of LC-MS/MS data.
Integration: The software is capable of integrating mass spectrometry data at the raw data, peptide and protein level. Furthermore, this data can be linked to other data types such as microarray data or sequence information. Currently data can be read from mzXML, pepXML, Bioworks (tabular), and protXML files.
Visualization: Prequips includes tabular data viewers as well as spectrum and chromatogram plots. It also provides an overview of the data as a 2-D gel-like image, which is a essential tool for quality control. All visualizations are interactive and linked to each other, making visual data exploration straightforward.
Analysis: Through implementation of the Gaggle interface [1] mass spectrometry data can be exchanged with programs such as Cytoscape, TIGR MeV, R and Firefox. This enables analysis and interactive exploration of large heterogeneous data sets without manual data conversion.
Prequips is written in Java and based on the Eclipse Rich Client platform. It runs on all operating systems supporting Java 1.5 or later.
