Fungi 100K+197 Normalized Score with Sammon and DA-SMACOF Init

Description

DataSet: Haixu 100K+197 Size: 100197 Unique: Yes
Aligner: SmithWaterman ScoringMatrix: EDNAFULL GapOpen: -16 GapExt: -4 DistanceType: Normalized SWG Score (2AB/AA+BB) Transformation: None
Mapping: Sammon DistanceCut: None
Initialization: DA-SMACOF Fixed: None
Varied: [0-100196]
DensitySat: 0.85

Links

• Simple Points
• Colon Points
• Group Points
• Summary File
• Timing File
• Manxcat Ouput
• Density Graph
• PlotViz

Images

Full Sample with Selected Clusters

 Configuration

I/O
 CoordinateWriteFrequency:      0
 DistanceMatrixFile:            F:\Salsa\saliya\millions\haixu_100K+197\100k+197_swg_distance_normscore_c#.bin


ManxcatCore
 AddonforQcomputation:          2
 CalcFixedCrossFixed:           True
 CGResidualLimit:               1E-05
 ChisqChangePerPoint:           0.001
 Chisqnorm:                     2
 ChisqPrintConstant:            1000
 ConversionInformation:         
 ConversionOption:              
 DataPoints:                    100197
 Derivtest:                     False
 DiskDistanceOption:            2
 DistanceCut:                   -1
 DistanceFormula:               1
 DistanceProcessingOption:      0
 DistanceWeigthsCuts:           
 Eigenvaluechange:              0.001
 Eigenvectorchange:             0.001
 ExtraOption1:                  0
 Extraprecision:                0.05
 FixedPointCriterion:           
 FletcherRho:                   0.25
 FletcherSigma:                 0.75
 FullSecondDerivativeOption:    0
 FunctionErrorCalcMultiplier:   10
 HistogramBinCount              100
 InitializationLoops:           1
 InitializationOption:          1
 InitialSteepestDescents:       0
 LinkCut:                       5
 LocalVectorDimension:          3
 Maxit:                         120
 MinimumDistance:               -0.001
 MPIIOStrategy:                 0
 Nbadgo:                        6
 Omega:                         1.25
 OmegaOption:                   0
 PowerIterationLimit:           200
 ProcessingOption:              0
 QgoodReductionFactor:          0.5
 QHighInitialFactor:            0.01
 QLimiscalecalculationInterval: 1
 RotationOption:                0
 Selectedfixedpoints:           
 Selectedvariedpoints:          
 StoredDistanceOption:          2
 TimeCutmillisec:               -1
 TransformMethod:               0
 TransformParameter:            0.125
 UndefindDistanceValue:         -1
 VariedPointCriterion:          all
 WeightingOption:               0
 Write2Das3D:                   True


Density
 Alpha:                         2
 Pcutf:                         0.85
 SelectedClusters:              
 XmaxBound:                     1
 Xres:                          50
 YmaxBound:                     1
 Yres:                          50