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uk.ac.sanger.cgp.standalonecsa.beans - package uk.ac.sanger.cgp.standalonecsa.beans
The beans used by Standalone AutoCSA.
uk.ac.sanger.cgp.standalonecsa.control - package uk.ac.sanger.cgp.standalonecsa.control
The controlling main methods used in the application.
uk.ac.sanger.cgp.standalonecsa.enums - package uk.ac.sanger.cgp.standalonecsa.enums
The immutable objects used in Standalone AutoCSA.
uk.ac.sanger.cgp.standalonecsa.exceptions - package uk.ac.sanger.cgp.standalonecsa.exceptions
The exception classes used in Standalone AutoCSA.
uk.ac.sanger.cgp.standalonecsa.gui - package uk.ac.sanger.cgp.standalonecsa.gui
The interactive setup GUI used in the Standalone AutoCSA application.
uk.ac.sanger.cgp.standalonecsa.interfaces - package uk.ac.sanger.cgp.standalonecsa.interfaces
The service interface classes used in Standalone AutoCSA.
uk.ac.sanger.cgp.standalonecsa.jabawat - package uk.ac.sanger.cgp.standalonecsa.jabawat
The core of the alignment system used in Standalone AutoCSA.
uk.ac.sanger.cgp.standalonecsa.services - package uk.ac.sanger.cgp.standalonecsa.services
The implementations of the services used in Standalone AutoCSA.
uk.ac.sanger.cgp.standalonecsa.util - package uk.ac.sanger.cgp.standalonecsa.util
The utility classes used in Standalone AutoCSA.
UNDERLOADED - Static variable in class uk.ac.sanger.cgp.standalonecsa.beans.Constants.TraceStatus
Underloaded trace status.
UNKNOWN - Static variable in class uk.ac.sanger.cgp.standalonecsa.beans.Constants.Zygosity
Unknown zygosity id
UNKNOWN_CHROMAT_FORMAT - Static variable in class uk.ac.sanger.cgp.standalonecsa.beans.Constants.TraceStatus
Unknown chromatogram format trace status.
UNKNOWN_CHROMATOGRAM - Static variable in class uk.ac.sanger.cgp.standalonecsa.enums.CsaError
Use when catching and handling files that do not appear to be ab1 or scf.
UNKNOWN_SCAN_START - Static variable in class uk.ac.sanger.cgp.standalonecsa.enums.CsaError
Use when indicating that a start scan position in the trace cannot be identified.
UNKNOWN_SCAN_STOP - Static variable in class uk.ac.sanger.cgp.standalonecsa.enums.CsaError
Use when indicating that a stop scan position in the trace cannot be identified.
UNSUPPORTED_CHROM_FORMAT - Static variable in class uk.ac.sanger.cgp.standalonecsa.enums.CsaError
Use when catching and handling an UnsupportedChromatogramFormatException from BioJava.
USEFUL - Static variable in class uk.ac.sanger.cgp.standalonecsa.beans.Constants.PreFlagging
Useful pre flagging status
USELESS - Static variable in class uk.ac.sanger.cgp.standalonecsa.beans.Constants.PreFlagging
Useless pre flagging status

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