Files in nicohuttmann/htmnanalysis

Analysis of Omics Data

R/addPrepro.R R/adjacency.R R/benjaminiHochbergCorrection.R R/build_GOannotations.R R/cgroups.R R/cleanup.R R/cm0.R R/cmna.R R/cmsd.R R/cmv02.R R/combineAND.R R/combineOR.R R/combine_groups.R R/connectivityFromCor.R R/connectivityFromCor_rel.R R/connectivityFromExpr.R R/connectivityFromExpr_rel.R R/contain_list.R R/cor_object.R R/createTraitTable.R R/create_protein_db.R R/ct.R R/cv.R R/d.R R/dataProcessing.R R/define_groups.R R/enrichGO.R R/enrichGOGroups.R R/extractData.R R/extractRownames.R R/extractRownames1.R R/extractRownames2.R R/factorizeMatrix.R R/fisherTestGO.R R/gapply.R R/geomean.R R/getAllProteins.R R/getData.R R/getDataFrame.R R/getList.R R/getMedianNormalizationFactors.R R/getNames.R R/getNumber.R R/getObject.R R/getSampleGroup.R R/getVector.R R/getVector1.R R/importRawData.R R/importTraitData.R R/impute_normd.R R/loadRawData.R R/make_ranges.R R/meanAbsCor.R R/meanCor.R R/medianAbd.R R/medianFactor.R R/modifyNames.R R/n.R R/new_cache.R R/new_dat.R R/new_raw_data.R R/nf.R R/ok.R R/plot_corMatrix.R R/plot_dendrogram.R R/plot_marker.R R/plot_varianceDendrogram.R R/plot_venn2.R R/plot_venn3.R R/printn.R R/processQualitativeData.R R/removePrefix.R R/s_cache.R R/saveThatShit.R R/saveThis.R R/save_ggplot.R R/setColRowNames.R R/setSampleGroups.R R/similarity.R R/simpleCorMatrix.R R/simplePCA.R R/start0.R R/storeRawData.R R/studentstTest.R R/subsetVector.R R/transposeData.R R/tri.R R/ttestdown.R R/ttestup.R R/wd.R R/whatToDo.R README.Rmd README.md man/addPrepro.Rd man/adjacency.Rd man/benjaminiHochbergCorrection.Rd man/build.GOannotaions.Rd man/cgroups.Rd man/cleanUp.Rd man/cm0.Rd man/cmna.Rd man/cmsd.Rd man/cmv02.Rd man/combine.groups.Rd man/combineAND.Rd man/combineOR.Rd man/connectivityFromCor.Rd man/connectivityFromCor.rel.Rd man/connectivityFromExpr.Rd man/connectivityFromExpr.rel.Rd man/contain.list.Rd man/cor.object.Rd man/corMatrix.Rd man/createTraitTable.Rd man/create_protein.db.Rd man/ct.Rd man/cv.Rd man/d.Rd man/dataProcessing.Rd man/define.groups.Rd man/enrichGO.Rd man/enrichGOGroups.Rd man/extractData.Rd man/extractRownames.Rd man/extractRownames1.Rd man/extractRownames2.Rd man/factorizeMatrix.Rd man/fisherTestGO.Rd man/gapply.Rd man/geomean.Rd man/getALLProteins.Rd man/getData.Rd man/getDataFrame.Rd man/getList.Rd man/getMedianNormalizationFactors.Rd man/getNames.Rd man/getNumber.Rd man/getSampleGroup.Rd man/getVector.Rd man/getVector1.Rd man/importRawData.Rd man/importTraitData.Rd man/impute_normd.Rd man/loadRawData.Rd man/make.ranges.Rd man/meanAbsCor.Rd man/meanCor.Rd man/medianAbd.Rd man/medianFactor.Rd man/modifyNames.Rd man/n.Rd man/new.cache.Rd man/new_dat.Rd man/new_raw_data.Rd man/nf.Rd man/ok.Rd man/plot_corMatrix.Rd man/plot_dendrogram.Rd man/plot_marker.Rd man/plot_varianceDendrogram.Rd man/plot_venn2.Rd man/plot_venn3.Rd man/printn.Rd man/processQualitativeData.Rd man/removePrefix.Rd man/s.cache.Rd man/save.ggplot.Rd man/saveThatShit.Rd man/saveThis.Rd man/setColRowNames.Rd man/setSampleGroups.Rd man/similarity.Rd man/simplePCA.Rd man/start0.Rd man/storeRawData.Rd man/studentstTest.Rd man/subsetVector.Rd man/transposeData.Rd man/tri.Rd man/ttestdown.Rd man/ttestup.Rd man/wd.Rd man/whatToDo.Rd vignettes/Vignette.Rmd