public void FastaTrimRegex2()
{
Sequence seqObj = new Sequence(Alphabets.DNA, "TTTAAAGATTACATTTAAA");
Sequence expected = new Sequence(Alphabets.DNA, "TTTAAAGATTACA");
TrimByRegex target = new TrimByRegex(new FastAParser(), new FastAFormatter(), new FastAFormatter(), @"TTTAAA$");
ISequence actual = target.Trim(seqObj);
Assert.AreEqual(BioHelper.GetStringSequence(expected), BioHelper.GetStringSequence(actual));
}
public void FastqTrimRegex1()
{
QualitativeSequence seqObj = new QualitativeSequence(Alphabets.DNA, FastQFormatType.Sanger, "GGGCCCGATTACATTTAAA", "ABCABCIIIIIIIABCABC");
QualitativeSequence expected = new QualitativeSequence(Alphabets.DNA, FastQFormatType.Sanger, "GGGCCCTTTAAA", "ABCABCABCABC");
TrimByRegex target = new TrimByRegex(new FastQParser(), new FastQFormatter(), new FastQFormatter(), "GATTACA");
ISequence actual = target.Trim(seqObj);
Assert.AreEqual(BioHelper.GetStringSequence(expected), BioHelper.GetStringSequence(actual));
Assert.AreEqual(BioHelper.GetEncodedQualityScoreStringSequence(expected), BioHelper.GetEncodedQualityScoreStringSequence(actual as QualitativeSequence));
}
