public void ValidatePadenaStep1BuildKmers()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateDe2AssemblerBuildKmers(Constants.OneLineReadsNode);
}
}
public void ValidatePadenaStep1KmerBuilderBuild()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateKmerBuilderBuild(Constants.OneLineReadsNode);
}
}
public void ValidatePadenaStep5SimpleContigBuilderBuildContigs()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateSimpleContigBuilderBuild(Constants.OneLineStep5ReadsNode);
}
}
public void ValidatePadenaStep6FilterPairedReadsForReverseOrientation()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateFilterPaired(Constants.FilterPairedReadReverseOrietnationContigsNode);
}
}
public void ValidatePadenaStep6CalculateDistanceForReversePairedContigs()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateContigDistance(Constants.FilterPairedReadReverseOrietnationContigsNode);
}
}
public void ValidatePadenaStep6MapReadsToContigsForPartialOverlap()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateMapReadsToContig(Constants.MapReadsToContigPartialOverlapNode, false);
}
}
public void ValidatePadenaStep6FilterPairedReadsUsingRedundancy()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateFilterPaired(Constants.FilterPairedReadContigsUsingRedundancy);
}
}
public void ValidatePadenaAssembledSeqsWithErosionAndLowCoverageContig()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidatePadenaAssembledSeqs(
Constants.AssembledSequencesForSequenceReadsWithErosionAndLCCNode,
true, true, true);
}
}
public void ValidatePadenaStep1KmersOfSequenceGetKmers()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateKmersOfSequenceCtor(Constants.OneLineReadsNode);
}
}
public void ValidatePadenaStep6ScaffoldPathForReverseOrientation()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateScaffoldPath(Constants.ScaffoldPathWithOverlapReverseNode);
}
}
public void ValidateParallelDenovoAssemblerProperties()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ParallelDenovoAssemblyProperties(
Constants.AssembledSequencesForSequenceReadsNode);
}
}
public void ValidatePadenaStep4RemoveRedundancy()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateDe2AssemblerRemoveRedundancy(
Constants.OneLineStep4ReadsAfterRemoveRedundancy);
}
}
public void ValidatePadenaStep4RemoveErrorNodes()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateRedundantPathPurgerCtor(Constants.OneLineStep4ReadsAfterErrorRemove);
}
}
public void ValidatePadenaStep3RemoveErrorNodes()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidatePadenaRemoveErrorNodes(Constants.OneLineStep3GraphNode);
}
}
public void ValidatePadenaStep3UndangleGraph()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateDe2AssemblerUnDangleGraph(Constants.OneLineStep3GraphNode);
}
}
public void ValidatePadenaStep2DeBruijnNodeAddRightExtension()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateDeBruijnNodeAddRightExtension(Constants.OneLineStep2GraphNode);
}
}
public void ValidatePadenaStep2DeBruijnNode()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateDeBruijnNodeCtor(Constants.OneLineStep2GraphNode);
}
}
public void ValidatePadenaStep2BuildGraph()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateDe2AssemblerBuildGraph(Constants.OneLineStep2GraphNode);
}
}
public void ValidatePadenaStep6AssembledPathWithPartialOverlapContigs()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateAssembledPath(Constants.AssembledPathWithoutOverlap);
}
}
public void ValidatePadenaStep6FAndRFormatPairedReads()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidatePairedReads(Constants.FAndRPairedReadsNode);
}
}
public void ValidatePadenaSequenceContigsWithSmallReads()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidatePadenaAssembledSeqs(
Constants.AssembledContigsForSequenceReadsNode,
false, false, false);
}
}
public void ValidatePadenaStep6Libraryinformation()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.AddLibraryInformation(Constants.X1AndY1FormatPairedReadAddLibrary);
}
}
public void ValidatePadenaStep6MapReadsToContigs()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateMapReadsToContig(Constants.MapReadsToContigFullOverlapNode, true);
}
}
public void ValidatePadenaStep1KmersOfSequenceCtorWithBuildKmers()
{
using (PadenaBvtTest testObj = new Padena.PadenaBvtTest())
{
testObj.ValidateKmersOfSequenceCtorWithBuildKmers(Constants.SmallChromosomeReadsNode);
}
}
