Classification for Biological Sequences


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Documentation for package ‘BioSeqClass’ version 1.0.0

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.callPerl Assistant Functions
.onLoad Load packages and data
.pathPerl Assistant Functions
aa.index Assistant Functions
aaClass Assistant Functions
aligndisHR Homolog Reduction
basic Assistant Functions
cdhitHR Homolog Reduction
classify Classification
classifyModelBAG Classification Model
classifyModelCTREE Classification Model
classifyModelCTREELIBSVM Classification Model
classifyModelKNN Classification Model
classifyModelLIBSVM Classification Model
classifyModelNB Classification Model
classifyModelNNET Classification Model
classifyModelRF Classification Model
classifyModelRPART Classification Model
classifyModelSVMLIGHT Classification Model
classifyModelTree Classification Model
combine Classify Functions
DiProDB Assistant Functions
distance Homolog Reduction
dssp.ss Assistant Functions
elements Assistant Functions
featureAAindex Feature Coding by physicochemical/biochemical properties in AAindex
featureACF Feature Coding by physicochemical/biochemical properties in AAindex
featureACH Feature Coding by hydrophobicity
featureACI Feature Coding by physicochemical/biochemical properties in AAindex
featureBDNAVIDEO Feature Coding by DNA/RNA property
featureBinary Feature Coding by Binary Vectors
featureCKSAAP Feature Coding by k-spaced Aminoacids/Base Pairs
featureCTD Feature Coding by composition, transition and distribution
featureDIPRODB Feature Coding by Dinucleotide Property
featureDOMAIN Feature Coding by doamin organization
featureFragmentComposition Feature Coding by the composition of k-mer fragments
featureGapPairComposition Feature Coding by g-spaced aminoacids/bases pairs
featureHydro Feature Coding by hydrophobicity
featurePseudoAAComp Feature Coding by Pseudo Amino Acid Composiion
featurePSSM Feature Coding
featureSSC Feature Coding by secondary structure
getDSSP Feature Coding by secondary structure
getNegSite Homolog Reduction
getTrain Homolog Reduction
hr Homolog Reduction
model Classification Model
performance Performance Evaluation
predictPFAM Feature Coding by doamin organization
predictPROTEUS Feature Coding by secondary structure
PROPERTY Assistant Functions
pwm Assistant Functions
selectFFS Feature Selection by FFS
selectWeka Feature Selection by Weka
sub.seq Assistant Functions