Software:Libra
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Current revision Luis (Talk | contribs) (→More detail) |
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| + | ==Getting the software== | ||
| + | '''This software is included in the current [[Software:TPP|TPP]] distribution.''' | ||
| - | Reference: Li X-J, Pedrioli PGA, Eng J, Martin D, Yi EC, Lee H, Aebersold R. (2004) "A tool to visualize and evaluate data obtained by liquid chromatography / electrospray ionization / mass spectrometry." Anal Chem 76:3856-60. | + | ==In a nutshell== |
| - | [http://tools.proteomecenter.org/publications/Li-Pep3D.pdf download PDF] | + | 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 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 | ||
| + | * The condition file | ||
| + | * Details about what Libra does | ||
| + | * How accurate is the quantitation? | ||
| + | |||
| + | ==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. | ||
| + | |||
| + | ==Authors== | ||
| + | *'''Patrick Pedrioli''': original code author of Quantitation | ||
| + | *'''Andrew Keller''': peptide assignment to proteins within pipeline | ||
| + | *'''Nichole King''': code maintenance/additions/corrections | ||
Current revision
Contents |
[edit]
Getting the software
This software is included in the current TPP distribution.
[edit]
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
