Changes between Initial Version and Version 1 of GlycanDatabaseHandling


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Timestamp:
06/27/2018 10:18:57 PM (3 years ago)
Author:
dbrentw
Comment:

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  • GlycanDatabaseHandling

    v1 v1  
     1= GRITS Glycan Database Handling =
     2GRITS supports pre-defined databases of Glycan structures stored in XML format. This document describes the basic structure and how to read and load the structures for processing within GRITS[[BR]]
     3[[BR]]
     4== Glycan XML Basics ==
     5GRITS Objects (plugin org.grits.toolbox.ms.annotation):
     61) org.grits.toolbox.ms.annotation.structure\Database.java ("database")[[BR]]
     7  Contains:
     8    a) ** List of GlycanStructures (tag = "glycan") ** [[BR]]
     9    b) ** name **[[BR]]
     10    c) description, structureCount[[BR]]
     112) org.grits.toolbox.ms.annotation.structure\GlycanStructure.java[[BR]]
     12  Contains:
     13    a) ** id **[[BR]]
     14    b) Sequence & Sequence Format[[BR]]
     15    c) Sequence in Glycoworkbench (GWB) Format[[BR]]
     16    ** To create Glycan cartoons, you will need the GWB format. You can set this directly, or you can convert a sequence of other type to GWB sequence if you provide the "Sequence Format"**[[BR]]
     17