Move the public method getSampleName() to FilterNameRetriever class.
Move getSampleName() method.
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The error catcher can be attached to the main JVM and is triggered any time a throwable exception makes it back all the way through the stack without being caught so we don't miss any errors.
 A generic exception class representing logic exceptions generated within RED.
The Class EditingTypeFilter is a rule-based filter that user enables to select the type of RNA editing as his preference.
The Class FisherExactTestFilter is a statistical filter to reduce the errors in detecting RNA editing sites caused by technical artifacts (e.g., sequencing errors).
Update help content.
Database connection icon, used in toolbar.
Preferences setting icon, used in toolbar.
Switch sample from database icon, used in toolbar.
When error occurs, we make a cry face...
Change the icon style.
Delete obsolete exceptions.
The parser exception, a good example which I have not used in real environment.
The Class KnownSNPFilter is a rule-based filter that will filter out the site which was known SNP in DNA level for eliminating germline variants.
The Class QualityControlFilter is a rule-based filter to filter RNA editing sites by their quality and coverage of depth.
The Class RepeatRegionsFilter is a rule-based filter. Variants that were within repeat regions were excluded. However, sites in SINE/Alu regions were remained since A-I RNA editing is pervasive in Alu repeats and it has been implicated in human diseases such as breast cancer and Ewing's sarcoma.
The Class SpliceJunctionFilter is a rule-based filter. Variants that were within+/-k bp (e.g., k = 2) of the splice junction, which were supposed to be unreliable, were excluded based on the gene annotation file.
The Class DNARNAFilter is a rule-based filter. RNA-seq variants where its counterparts in genomic DNA is not reference homozygote (e.g., AA) would be excluded if DNA sequencing data is available.