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Bioinformatics Toolbox Classes

Alphabetical List By Category
biographCreate biograph object
biograph objectData structure containing generic interconnected data used to implement directed graph
BioIndexedFileAllow quick and efficient access to large text file with nonuniform-size entries
bioma.data.ExptDataContain data values from microarray experiment
bioma.data.MetaDataContain metadata from microarray experiment
bioma.data.MIAMEContain experiment information from microarray gene expression experiment
bioma.ExpressionSetContain data from microarray gene expression experiment
BioMapContain sequence, quality, alignment, and mapping data
BioReadContain sequence and quality data
BioReadQualityStatisticsQuality statistics from a short-read sequence file
clustergram objectObject containing hierarchical clustering analysis data
cpgislandLocate CpG islands in DNA sequence
DataMatrixCreate DataMatrix object
DataMatrix objectData structure encapsulating data and metadata from microarray experiment so that it can be indexed by gene or probe identifiers and by sample identifiers
geneontCreate geneont object and term objects
GFFAnnotationContain General Feature Format (GFF) annotations
goannotreadRead annotations from Gene Ontology annotated file
GTFAnnotationContain Gene Transfer Format (GTF) annotations
HeatMapDisplay heat map of matrix data and create HeatMap object
HeatMap objectObject containing matrix and heat map display properties
NegativeBinomialTestUnpaired hypothesis test result
num2goidConvert numbers to Gene Ontology IDs
phytreeCreate phytree object
phytree objectData structure containing phylogenetic tree
soapreadRead data from Short Oligonucleotide Analysis Package (SOAP) file
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