Software:Libra
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| Revision as of 22:56, 13 April 2007 Jtasman (Talk | contribs) (adding link to online condition file generator) ← Previous diff |
Current revision Luis (Talk | contribs) (→More detail) |
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| ==In a nutshell== | ==In a nutshell== | ||
| - | Libra is a module within the trans-proteomic pipeline to perform quantification on MS/MS spectra that have multi-reagent labeled peptides. More specifically, at ISB we use Libra on MS/MS spectra of iTRAQ labeled samples. | + | Libra is a module within the trans-proteomic pipeline to perform quantification on MS/MS spectra that have isobaric multi-reagent labeled peptides. More specifically, at ISB we use Libra on MS/MS spectra of iTRAQ labeled samples; it can also be used on TMT labeled samples. There is no limitation to the number of channels that Libra can quantitate against. |
| ==More detail== | ==More detail== | ||
| - | More detailed information can be found at [http://sashimi.cvs.sourceforge.net/*checkout*/sashimi/trans_proteomic_pipeline/src/Quantitation/Libra/docs/libra_info.html Sourceforge], including: | + | More detailed information can be found by [http://sourceforge.net/p/sashimi/code/HEAD/tree/trunk/trans_proteomic_pipeline/src/Quantitation/Libra/docs/libra_info.html downloading this file], including: |
| * Command line syntax for using Libra | * Command line syntax for using Libra | ||
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| * How accurate is the quantitation? | * How accurate is the quantitation? | ||
| - | ==Condition File Generator== | + | ==Generating a Condition File== |
| - | The [http://db.systemsbiology.net/webapps/conditionFileApp Libra condition file generator] is a useful web application. | + | |
| + | You can generate a condition file using the built-in utility within the TPP web UI (Petunia), or by using a text editor. | ||
| ==Authors== | ==Authors== | ||
Current revision
Contents |
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Getting the software
This software is included in the current TPP distribution.
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In a nutshell
Libra is a module within the trans-proteomic pipeline to perform quantification on MS/MS spectra that have isobaric multi-reagent labeled peptides. More specifically, at ISB we use Libra on MS/MS spectra of iTRAQ labeled samples; it can also be used on TMT labeled samples. There is no limitation to the number of channels that Libra can quantitate against.
[edit]
More detail
More detailed information can be found by downloading this file, including:
- Command line syntax for using Libra
- The condition file
- Details about what Libra does
- How accurate is the quantitation?
[edit]
Generating a Condition File
You can generate a condition file using the built-in utility within the TPP web UI (Petunia), or by using a text editor.
[edit]
Authors
- Patrick Pedrioli: original code author of Quantitation
- Andrew Keller: peptide assignment to proteins within pipeline
- Nichole King: code maintenance/additions/corrections
