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Data Import and Management

Import data and annotations from various file formats

Import data and annotations from various file and data formats, including Affymetrix® GeneChip®, Illumina®, Agilent®, Gene Expression Omnibus (GEO), ImaGene®, SPOT, GenePix® GPR, and GAL. You can also manage experimental data and sample metadata per MIAME standard.


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affyreadRead microarray data from Affymetrix GeneChip file
affysnpannotreadRead Affymetrix Mapping DNA array data from CSV-format annotation file
affyprobeseqreadRead data file containing probe sequence information for Affymetrix GeneChip array
celintensityreadRead probe intensities from Affymetrix CEL files
getgeodataRetrieve Gene Expression Omnibus (GEO) format data
geoseriesreadRead Gene Expression Omnibus (GEO) Series (GSE) format data
geosoftreadRead Gene Expression Omnibus (GEO) SOFT format data
galreadRead microarray data from GenePix array list file
gprreadRead microarray data from GenePix Results (GPR) file
agfereadRead Agilent Feature Extraction Software file
ilmnbsreadRead gene expression data exported from Illumina BeadStudio software
imagenereadRead microarray data from ImaGene Results file
sptreadRead data from SPOT file
goannotreadRead annotations from Gene Ontology annotated file
cytobandreadRead cytogenetic banding information


bioma.ExpressionSetContain data from microarray gene expression experiment data values from microarray experiment metadata from microarray experiment experiment information from microarray gene expression experiment