Files in isglobal-brge/dsOmicsClient
DataSHIELD client site Omics association functions.

.Rbuildignore

.gitignore

DESCRIPTION

LICENSE

NAMESPACE

R/LocusZoom.R R/checkForExpressionSet.R R/ds.DESeq2.R R/ds.GenotypeData.R R/ds.PCA.R R/ds.PCASNPS.R R/ds.PLINK.R R/ds.PRS.R R/ds.RNAseqPreproc.R R/ds.addPhenoData.R R/ds.alleleFrequency.R R/ds.createRSE.R R/ds.edgeR.R R/ds.exactHWE.R R/ds.fastGWAS.R R/ds.featureData.R R/ds.featureNames.R R/ds.fvarLabels.R R/ds.genoDimensions.R R/ds.getChromosomeNames.R R/ds.getSNPSbyGen.R R/ds.getSNPs.R R/ds.glmSNP.R R/ds.index.gdsn.R R/ds.limma.R R/ds.lmFeature.R R/ds.make_valid_names.R R/ds.metaGWAS.R R/ds.methylation_array_convert.R R/ds.nFeatures.R R/ds.nSamples.R R/ds.pData.R R/ds.removeOutliers.R R/ds.snptest.R R/ds.subsetExpressionSet.R R/ds.table_gds.R R/ds.varLabels.R R/eafPlot.R R/get_EGA_url.R R/get_ga4gh_url.R R/glmSNP.R R/lambdaNPlot.R R/lmFeature.R R/manhattan.R R/metaBetaValues.R R/metaPvalues.R R/plot.dsLmFeature.R R/plotPCA.R R/plotPCASNPS.R R/pzPlot.R R/qqplot.R R/seNPlot.R R/standardizeGenoData.R R/tolist.R README.md

docs/404.html

docs/LICENSE-text.html

docs/articles/geno_exploration.html

docs/articles/index.html

docs/authors.html

docs/bootstrap-toc.css

docs/bootstrap-toc.js

docs/docsearch.css

docs/docsearch.js

docs/index.html

docs/link.svg

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/LocusZoom.html

docs/reference/Rplot001.png

docs/reference/checkForExpressionSet.html

docs/reference/dot-eafPlot.html

docs/reference/dot-pzPlotgg.html

docs/reference/ds.DESeq2.html

docs/reference/ds.GenotypeData.html

docs/reference/ds.PCA.html

docs/reference/ds.PCASNPS.html

docs/reference/ds.PLINK.html

docs/reference/ds.PRS.html

docs/reference/ds.RNAseqPreproc.html

docs/reference/ds.addPhenoData2eSet.html

docs/reference/ds.alleleFrequency.html

docs/reference/ds.createRSE.html

docs/reference/ds.edgeR.html

docs/reference/ds.exactHWE.html

docs/reference/ds.fastGWAS.html

docs/reference/ds.featureData.html

docs/reference/ds.featureNames.html

docs/reference/ds.fvarLabels.html

docs/reference/ds.genoDimensions.html

docs/reference/ds.getChromosomeNames.html

docs/reference/ds.getSNPSbyGen.html

docs/reference/ds.getSNPs.html

docs/reference/ds.glmSNP.html

docs/reference/ds.index.gdsn.html

docs/reference/ds.limma.html

docs/reference/ds.lmFeature.html

docs/reference/ds.make_valid_names.html

docs/reference/ds.metaGWAS.html

docs/reference/ds.nFeatures.html

docs/reference/ds.nSamples.html

docs/reference/ds.removeOutliers.html

docs/reference/ds.snptest.html

docs/reference/ds.subsetExpressionSet.html

docs/reference/ds.table_gds.html

docs/reference/ds.varLabels.html

docs/reference/eafPlot.html

docs/reference/get_EGA_url.html

docs/reference/get_ga4gh_url.html

docs/reference/glmSNP.html

docs/reference/index.html

docs/reference/lambdaNPlot.html

docs/reference/lmFeature.html

docs/reference/manhattan.html

docs/reference/metaBetaValues.html

docs/reference/metaPvalues.html

docs/reference/plot.dsLmFeature.html

docs/reference/plotPCA.html

docs/reference/plotPCASNPS.html

docs/reference/pzPlot.html

docs/reference/qqplot.html

docs/reference/seNPlot.html

docs/reference/standardizeGenoData.html

docs/reference/tolist.html

docs/sitemap.xml

dsOmicsClient.Rproj

man/LocusZoom.Rd man/checkForExpressionSet.Rd man/dot-eafPlot.Rd man/dot-pzPlotgg.Rd man/ds.DESeq2.Rd man/ds.GenotypeData.Rd man/ds.PCA.Rd man/ds.PCASNPS.Rd man/ds.PLINK.Rd man/ds.PRS.Rd man/ds.RNAseqPreproc.Rd man/ds.addPhenoData2eSet.Rd man/ds.alleleFrequency.Rd man/ds.createRSE.Rd man/ds.edgeR.Rd man/ds.exactHWE.Rd man/ds.fastGWAS.Rd man/ds.featureData.Rd man/ds.featureNames.Rd man/ds.fvarLabels.Rd man/ds.genoDimensions.Rd man/ds.getChromosomeNames.Rd man/ds.getSNPSbyGen.Rd man/ds.getSNPs.Rd man/ds.glmSNP.Rd man/ds.index.gdsn.Rd man/ds.limma.Rd man/ds.lmFeature.Rd man/ds.make_valid_names.Rd man/ds.metaGWAS.Rd man/ds.methylation_array_convert.Rd man/ds.nFeatures.Rd man/ds.nSamples.Rd man/ds.pData.Rd man/ds.removeOutliers.Rd man/ds.snptest.Rd man/ds.subsetExpressionSet.Rd man/ds.table_gds.Rd man/ds.varLabels.Rd man/eafPlot.Rd man/get_EGA_url.Rd man/get_ga4gh_url.Rd man/glmSNP.Rd man/lambdaNPlot.Rd man/lmFeature.Rd man/manhattan.Rd man/metaBetaValues.Rd man/metaPvalues.Rd man/plot.dsLmFeature.Rd man/plotPCA.Rd man/plotPCASNPS.Rd man/pzPlot.Rd man/qqplot.Rd man/seNPlot.Rd man/standardizeGenoData.Rd man/tolist.Rd tests/create_gse.R tests/getClientVCF.R tests/script_create_Eset.R tests/script_create_ExpoSet.R tests/script_create_VCF.R tests/script_create_files_plink.R tests/script_create_limma.R tests/script_create_metanalysis.R tests/script_create_sva.R tests/script_ega_rnaseq.R tests/script_install_opal.R tests/script_plink.R vignettes/geno_exploration.Rmd

vignettes/geno_exploration.nb.html

vignettes_old_backup/EGA_DataSHIELD.Rmd vignettes_old_backup/GWAS_DataSHIELD.Rmd

vignettes_old_backup/GWAS_DataSHIELD.html

vignettes_old_backup/GWAS_DataSHIELD_Vignette.bib

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/eafPlot-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/fastManhattanPlot-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/locuszoom-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/multiCohortManhattanPlot-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/multiCohortManhattanPlot2-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/multiCohortManhattanPlot3-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/multi_cohort_manhattan_plot-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/multi_cohort_manhattan_plot_2-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/multi_cohort_manhattan_plot_3-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/pzplot-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/senplot-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/singleCohortManhattan_plot-1.png

vignettes_old_backup/GWAS_DataSHIELD_files/figure-html/single_cohort_manhattan_plot-1.png

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vignettes_old_backup/dsOmics.Rmd

vignettes_old_backup/dsOmics.html

vignettes_old_backup/dsOmics.log

vignettes_old_backup/dsOmics.tex

vignettes_old_backup/dsOmics_Vignette.bib

vignettes_old_backup/dsOmics_files/figure-html/PCASNPs-1.png

vignettes_old_backup/dsOmics_files/figure-html/plotInfl-1.png

vignettes_old_backup/dsOmics_files/figure-html/plotInfl2-1.png

vignettes_old_backup/dsOmics_files/figure-html/plot_hist-1.png

vignettes_old_backup/dsOmics_files/figure-html/qqplot-1.png

vignettes_old_backup/ega.Rmd

vignettes_old_backup/ega.html

vignettes_old_backup/ega_Vignette.bib

vignettes_old_backup/fig/Imagen1.jpg

vignettes_old_backup/fig/Table_resources.jpg

vignettes_old_backup/fig/add_packages_opal.png

vignettes_old_backup/fig/add_packages_opal_2.png

vignettes_old_backup/fig/dsOmics.jpg

vignettes_old_backup/fig/dsOmics_A.jpg

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vignettes_old_backup/fig/opal_resource_VCF.png

vignettes_old_backup/fig/opal_resources.png

vignettes_old_backup/fig/opal_resources_API.png

vignettes_old_backup/fig/resourcer_fig.jpg

vignettes_old_backup/fig/singleSiteDSInfrastructure.jpg

vignettes_old_backup/gwas_images/block1.png

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vignettes_old_backup/gwas_images/blocks.drawio

vignettes_old_backup/gwas_images/multi_cohort.png

vignettes_old_backup/gwas_images/multi_cohort_flowchart.drawio

vignettes_old_backup/gwas_images/multi_cohort_flowchart.png

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vignettes_old_backup/gwas_images/prs.PNG

vignettes_old_backup/gwas_images/single_cohort.png

vignettes_old_backup/rsconnect/documents/EGA_DataSHIELD.Rmd/rpubs.com/rpubs/Document.dcf

vignettes_old_backup/rsconnect/documents/EGA_DataSHIELD.Rmd/rpubs.com/rpubs/Publish Document.dcf

vignettes_old_backup/rsconnect/documents/GWAS_DataSHIELD.Rmd/rpubs.com/rpubs/Document.dcf

vignettes_old_backup/rsconnect/documents/GWAS_DataSHIELD.Rmd/rpubs.com/rpubs/Publish Document.dcf

vignettes_old_backup/rsconnect/documents/dsOmics.Rmd/rpubs.com/rpubs/Document.dcf

vignettes_old_backup/rsconnect/documents/dsOmics.Rmd/rpubs.com/rpubs/Publish Document.dcf

vignettes_old_backup/study.Rmd

isglobal-brge/dsOmicsClient documentation built on March 20, 2023, 3:52 p.m.

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isglobal-brge/dsOmicsClient
DataSHIELD client site Omics association functions.

Files in isglobal-brge/dsOmicsClient
DataSHIELD client site Omics association functions.

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isglobal-brge/dsOmicsClient DataSHIELD client site Omics association functions.

Files in isglobal-brge/dsOmicsClient DataSHIELD client site Omics association functions.

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We want your feedback!

isglobal-brge/dsOmicsClient
DataSHIELD client site Omics association functions.

Files in isglobal-brge/dsOmicsClient
DataSHIELD client site Omics association functions.