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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_REASON
- Static variable in class uk.ac.sanger.cgp.standalonecsa.enums.
CsaError
Use when an unexpected exception is thrown
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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