Technical Overview

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*[[Technical Overview, aa table]]: the table of amino acid modifications and mutations.
*[[Technical Overview, aa table]]: the table of amino acid modifications and mutations.
*[[Technical Overview, best_expect table]]: the table of the lowest (best) expect score and identification count for each protein.
*[[Technical Overview, best_expect table]]: the table of the lowest (best) expect score and identification count for each protein.
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*[[Technical Overview, peptide_word_index table]]: the table that drives tag searches of peptide sequences.
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*[[Technical Overview, peptide_index table]]: the table that drives tag searches of peptide sequences.
*[[Technical Overview, paths table]]: the table of GPM file archive locations.
*[[Technical Overview, paths table]]: the table of GPM file archive locations.
*[[Technical Overview, peptide_mut table]]: the table of peptides with known point mutations.
*[[Technical Overview, peptide_mut table]]: the table of peptides with known point mutations.
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*[[Technical Overview, dblist_pep_modmass.pl]]: to search for protein identifications with specific residue modifications.
*[[Technical Overview, dblist_pep_modmass.pl]]: to search for protein identifications with specific residue modifications.
*[[Technical Overview, dblist_protein_mut.pl]]: to view peptides with known SNAPs.
*[[Technical Overview, dblist_protein_mut.pl]]: to view peptides with known SNAPs.
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*[[Technical Overview, dblist_pep_summary.pl]]: to view information on several peptides at a time.
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*[[Technical Overview, dblist_v.pl]]: to view consensus peptide coverage information for a protein.
*[[Technical Overview, pepdelta.pl]]: to view displays about the parent ions identified in a GPM result file.
*[[Technical Overview, pepdelta.pl]]: to view displays about the parent ions identified in a GPM result file.
*[[Technical Overview, peptide.pl]]: to view a calculated spectrum of a specific peptide in a GPM result file.
*[[Technical Overview, peptide.pl]]: to view a calculated spectrum of a specific peptide in a GPM result file.
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*[[Technical Overview, peptide_xlib.pl]]: to define modifications to a peptide and view the resulting calculated spectrum.
*[[Technical Overview, pgel.pl]]: to view a simulated two-dimensional gel of the proteins in a GPM result file.
*[[Technical Overview, pgel.pl]]: to view a simulated two-dimensional gel of the proteins in a GPM result file.
*[[Technical Overview, pgo.pl]]: to view the gene ontology of the proteins in a GPM result file.
*[[Technical Overview, pgo.pl]]: to view the gene ontology of the proteins in a GPM result file.
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=== peakdb ===
=== peakdb ===
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*[[Technical Overview, peak_search.pl]]: to view MRM information at the protein level.
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*[[Technical Overview, peak_details.pl]]: to view MRM information at the peptide level for a specific protein.
== Display Elements ==
== Display Elements ==
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*[[Technical Overview, AJAX content]]: asynchronously retrieved pieces of metadata about peptides and proteins.
*[[Technical Overview, AJAX content]]: asynchronously retrieved pieces of metadata about peptides and proteins.
*[[Technical Overview, protein information toolbar]]: a collection of internal and external links to further information regarding a protein accession number.
*[[Technical Overview, protein information toolbar]]: a collection of internal and external links to further information regarding a protein accession number.
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*[[Technical Overview, omega display]]: a metric of peptide coverage of a protein, with respect to charge state.

Latest revision as of 21:49, 7 April 2011

This page will serve as an index to the explanation pages for the entities that make up the GPM.

Contents

[hide]

Automatic Processes

Database Tables

GPMDB

EnspMapDB

peakdb

Software

GPMDB

peakdb

Display Elements

Personal tools