Files in dingruofan/xQTLbiolinks
An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'

.Rbuildignore

.gitignore

DESCRIPTION

GTExbiolinks.Rproj

LICENSE.md

NAMESPACE

NEWS.md R/analyze.R R/anno.R R/download.R R/global.R R/internal_dealWithGencode.R R/query.R

R/sysdata.rda

R/visualize.R R/xQTLbiolinks.R R/zzz.R README.md

_pkgdown.yml

data/ebi_datasets.rda

data/ebi_study_tissues.rda

data/example_Coloc_colocResultAll.rda

data/example_Coloc_colocResultsig.rda

data/example_Coloc_gwasDF.rda

data/example_Coloc_hyprcolocResultAll.rda

data/example_Coloc_outGenes.rda

data/example_Coloc_sentinelSNP.rda

data/example_Coloc_traitsAll.rda

data/gencodeGeneInfoAllGranges.rda

data/gencodeGenetype.rda

data/sampleNum.rda

data/tissueSiteDetailGTExv7.rda

data/tissueSiteDetailGTExv8.rda

docs/404.html

docs/LICENSE.html

docs/articles/Colocalization_analysis_with_xQTLbiolinks.html

docs/articles/Quick_start.html

docs/articles/eQTL_Specificity.html

docs/articles/images/eqtl_spec.png

docs/articles/images/eqtl_specificity/heatmap_MMP7.png

docs/articles/images/eqtl_specificity/regression_MMP7.png

docs/articles/images/prostate/anno.png

docs/articles/images/prostate/prostate_Go.png

docs/articles/images/prostate/prostate_combined.png

docs/articles/images/prostate/prostate_cor.png

docs/articles/images/prostate/prostate_eQTL_exp.png

docs/articles/images/prostate/prostate_eqtlTissues.png

docs/articles/images/prostate/prostate_exp_multissues.png

docs/articles/images/prostate/prostate_geneExpInOneTissue.png

docs/articles/images/prostate/prostate_locuscompare.png

docs/articles/images/prostate/prostate_locuszoom_eqtl.png

docs/articles/images/prostate/prostate_locuszoom_gwas.png

docs/articles/images/prostate/qq_pz_plot.png

docs/articles/images/prostate/venn_coloc_hyprcoloc.png

docs/articles/images/quick_start/QQplot.png

docs/articles/images/quick_start/colocalization_framework.png

docs/articles/images/quick_start/compare.png

docs/articles/images/quick_start/eQTL_multiple_tissue.png

docs/articles/images/quick_start/eqtl_legendF.png

docs/articles/images/quick_start/exp.png

docs/articles/images/quick_start/gwas_legendF.png

docs/articles/images/quick_start/propensity.png

docs/articles/images/quick_start/xQTLvisual_locusCombine.png

docs/articles/images/visualization/eQTLspecificity.png

docs/articles/images/visualization/geneExpTissues.png

docs/articles/images/visualization/visualization_locusCompare.png

docs/articles/images/visualization/visualization_locusZoom.png

docs/articles/images/visualization/visualization_locusZoom_eQTL1.png

docs/articles/images/visualization/visualization_locusZoom_eQTLpos.png

docs/articles/images/visualization/visualization_tissueExp.png

docs/articles/images/visualization/xQTLvisual_eqtl.png

docs/articles/images/visualization/xQTLvisual_eqtlExp.png

docs/articles/images/visualization/xQTLvisual_genesExp.png

docs/articles/images/visualization/xQTLvisual_locusCombine.png

docs/articles/images/visualization/xQTLvisual_sqtlExp.png

docs/articles/index.html

docs/articles/query_download.html

docs/articles/visualization.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/news/index.html

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/EBIquery_allTerm.html

docs/reference/Rplot001.png

docs/reference/apiAdmin_ping.html

docs/reference/apiEbi_ping.html

docs/reference/dbsnpQueryRange.html

docs/reference/ebi_datasets.html

docs/reference/ebi_qtl_groups.html

docs/reference/ebi_study_tissues.html

docs/reference/example_Coloc_colocResultAll.html

docs/reference/example_Coloc_colocResultsig.html

docs/reference/example_Coloc_gwasDF.html

docs/reference/example_Coloc_hyprcolocResultAll.html

docs/reference/example_Coloc_outGenes.html

docs/reference/example_Coloc_sentinelSNP.html

docs/reference/example_Coloc_traitsAll.html

docs/reference/extractGeneInfo.html

docs/reference/fetchContent.html

docs/reference/fetchContentEbi.html

docs/reference/gencodeGeneInfoAllGranges.html

docs/reference/gencodeGenetype.html

docs/reference/index.html

docs/reference/is.wholenumber.html

docs/reference/retrieveLD.html

docs/reference/retrieveLD_LDmatrix.html

docs/reference/retrieveLD_LDproxy.html

docs/reference/retrieveLD_LDproxy_old.html

docs/reference/sampleNum.html

docs/reference/tissueSiteDetailGTExv7.html

docs/reference/tissueSiteDetailGTExv8.html

docs/reference/xQTL_export.html

docs/reference/xQTLanalyze_TSExp.html

docs/reference/xQTLanalyze_anno.html

docs/reference/xQTLanalyze_calLambda.html

docs/reference/xQTLanalyze_coloc.html

docs/reference/xQTLanalyze_coloc_diy.html

docs/reference/xQTLanalyze_enrich.html

docs/reference/xQTLanalyze_getSentinelSnp.html

docs/reference/xQTLanalyze_getTraits.html

docs/reference/xQTLanalyze_propensity.html

docs/reference/xQTLanalyze_qtlSpecificity.html

docs/reference/xQTLanno_calLambda.html

docs/reference/xQTLanno_chippeak.html

docs/reference/xQTLanno_enrich.html

docs/reference/xQTLanno_genomic.html

docs/reference/xQTLbiolinks.html

docs/reference/xQTLdownload_egene.html

docs/reference/xQTLdownload_eqtl.html

docs/reference/xQTLdownload_eqtlAllAsso.html

docs/reference/xQTLdownload_eqtlAllAssoPos.html

docs/reference/xQTLdownload_eqtlExp.html

docs/reference/xQTLdownload_eqtlSig.html

docs/reference/xQTLdownload_exp.html

docs/reference/xQTLdownload_geneMedExp.html

docs/reference/xQTLdownload_hqtl.html

docs/reference/xQTLdownload_hqtlmeta.html

docs/reference/xQTLdownload_ld.html

docs/reference/xQTLdownload_mQTL.html

docs/reference/xQTLdownload_mqtlmeta.html

docs/reference/xQTLdownload_sc.html

docs/reference/xQTLdownload_scSig.html

docs/reference/xQTLdownload_sgene.html

docs/reference/xQTLdownload_sqtlAllAsso.html

docs/reference/xQTLdownload_sqtlExp.html

docs/reference/xQTLdownload_sqtlSig.html

docs/reference/xQTLdownload_xqtlAllAsso.html

docs/reference/xQTLquery_eqtl.html

docs/reference/xQTLquery_eqtlSig.html

docs/reference/xQTLquery_gene.html

docs/reference/xQTLquery_geneAll.html

docs/reference/xQTLquery_sampleBySampleId.html

docs/reference/xQTLquery_sampleByTissue.html

docs/reference/xQTLquery_sc.html

docs/reference/xQTLquery_scInfo.html

docs/reference/xQTLquery_sqtlSig.html

docs/reference/xQTLquery_tissue.html

docs/reference/xQTLquery_varId.html

docs/reference/xQTLquery_varPos.html

docs/reference/xQTLvisual_PNPlot.html

docs/reference/xQTLvisual_PZPlot.html

docs/reference/xQTLvisual_anno.html

docs/reference/xQTLvisual_coloc.html

docs/reference/xQTLvisual_enrich.html

docs/reference/xQTLvisual_eqtl.html

docs/reference/xQTLvisual_eqtlExp.html

docs/reference/xQTLvisual_geneCorr.html

docs/reference/xQTLvisual_geneExpTissues.html

docs/reference/xQTLvisual_genesExp.html

docs/reference/xQTLvisual_genoBox.html

docs/reference/xQTLvisual_locusCombine.html

docs/reference/xQTLvisual_locusCompare.html

docs/reference/xQTLvisual_locusZoom.html

docs/reference/xQTLvisual_manhattan.html

docs/reference/xQTLvisual_qqPlot.html

docs/reference/xQTLvisual_qtlPropensity.html

docs/reference/xQTLvisual_qtlSpecificity.html

docs/reference/xQTLvisual_sqtl.html

docs/reference/xQTLvisual_sqtlExp.html

docs/sitemap.xml

img/Overview.png

inst/extdata/hg19ToHg38.over.chain

inst/extdata/sceQTL_study_info.txt

vignettes/.gitignore

vignettes/Colocalization_analysis_with_xQTLbiolinks.Rmd vignettes/Quick_start.Rmd

vignettes/images/prostate/anno.png

vignettes/images/prostate/prostate_Go.png

vignettes/images/prostate/prostate_Go_old.png

vignettes/images/prostate/prostate_combined.png

vignettes/images/prostate/prostate_cor.png

vignettes/images/prostate/prostate_eQTL_exp.png

vignettes/images/prostate/prostate_eqtlTissues.png

vignettes/images/prostate/prostate_exp_multissues.png

vignettes/images/prostate/prostate_geneExpInOneTissue.png

vignettes/images/prostate/prostate_locuscompare.png

vignettes/images/prostate/prostate_locuszoom_eqtl.png

vignettes/images/prostate/prostate_locuszoom_gwas.png

vignettes/images/prostate/qq_plot_all.png

vignettes/images/prostate/qq_pz_plot.png

vignettes/images/prostate/venn_coloc_hyprcoloc.png

vignettes/images/quick_start/QQplot.png

vignettes/images/quick_start/colocalization_framework.png

vignettes/images/quick_start/compare.png

vignettes/images/quick_start/eQTL_multiple_tissue.png

vignettes/images/quick_start/eqtl_legendF.png

vignettes/images/quick_start/exp.png

vignettes/images/quick_start/gwas_legendF.png

vignettes/images/quick_start/propensity.png

vignettes/images/quick_start/xQTLvisual_locusCombine.png

vignettes/images/visualization/eQTLspecificity.png

vignettes/images/visualization/geneExpTissues.png

vignettes/images/visualization/visualization_locusCompare.png

vignettes/images/visualization/visualization_locusZoom.png

vignettes/images/visualization/visualization_locusZoom_eQTL1.png

vignettes/images/visualization/visualization_locusZoom_eQTLpos.png

vignettes/images/visualization/visualization_tissueExp.png

vignettes/images/visualization/xQTLvisual_eqtl.png

vignettes/images/visualization/xQTLvisual_eqtlExp.png

vignettes/images/visualization/xQTLvisual_genesExp.png

vignettes/images/visualization/xQTLvisual_locusCombine.png

vignettes/images/visualization/xQTLvisual_sqtlExp.png

vignettes/query_download.Rmd

vignettes/references.bib

vignettes/visualization.Rmd

dingruofan/xQTLbiolinks documentation built on Feb. 12, 2025, 4:57 a.m.

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dingruofan/xQTLbiolinks
An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'

Files in dingruofan/xQTLbiolinks
An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'

R Package Documentation

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dingruofan/xQTLbiolinks An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'

Files in dingruofan/xQTLbiolinks An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'

R Package Documentation

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dingruofan/xQTLbiolinks
An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'

Files in dingruofan/xQTLbiolinks
An R Package for Integrative Analysis of Quantitative Trait Locus Data of 'xQTL'