Man pages for ctlab/phantasus
Visual and interactive gene expression analysis

adjustDatasetAdjust dataset
calcPCAPrincipal Component Analysis.
calculatedAnnotationCreate calculated annotation
checkGPLsCheck possible annotations for GEO Dataset.
checkPreloadedNamesCheck names inside preloaded file
collapseDatasetCollapse dataset
createESCreate ExpressionSet.
esExample dataset
getArchs4FilesReturns list of ARCHS4 hdf5 files with expression data
getESLoad ExpressionSet by GEO identifier
getGDSLoad ExpressionSet from GEO Datasets
getGSELoad ExpressionSet from GEO Series
gseaPlotReturns path to an svg file with enrichment plot
limmaAnalysisDifferential Expression analysis.
loadFromARCHS4Loads expression data from ARCHS4 count files. Only sapmles...
loadGEOLoad GEO Dataset.
loadPreloadedLoad GEO Dataset.
performKmeansK-means clusterisation.
preloadedDirExistsCheck existence of phantasusPreloadedDir
read.gctReads ExpressionSet from a GCT file.
reparseCachedESsReparse cached expression sets from GEO.
servePhantasusServe phantasus.
shinyGAMAnalysisConstructs data frame with gene annotations and submits it...
subsetESSubsets es, if rows or columns are not specified, all are...
write.gctSaves ExpressionSet to a GCT file (version 1.3).
ctlab/phantasus documentation built on Nov. 5, 2018, 3:03 a.m.