Files in TiphaineCMartin/coMET
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns

DESCRIPTION

LICENSE

NAMESPACE

NEWS

R/AnalyseFile.R R/BiofeatureGraphics.R R/DrawPlot.R R/GeneralMethodComet.R R/comet.R R/cometWeb.R R/cometlist.R README.md

data/BindingMotifAll.rda

data/BindingMotifMultiple.rda

data/BindingMotifSingle.rda

data/ClinVarCnvTrack.rda

data/CoreillCNVTrack.rda

data/DNaseI_RoadMapSingle.rda

data/DupTrack.rda

data/GWASTrack.rda

data/GeneReviewTrack.rda

data/GeneReviewsTrack.rda

data/ISCAtrack.rda

data/ISCAtrack_Grch38.rda

data/OtherRegulatoryRegionsAll.rda

data/OtherRegulatoryRegionsSingle.rda

data/PancreasIG.rda

data/PancreasIGtrack.rda

data/PancreasimprintedIG.rda

data/PancreasimprintedIGtrack.rda

data/RegulatoryEvidenceBiomartAll.rda

data/RegulatoryEvidenceBiomartMultiple.rda

data/RegulatoryEvidenceBiomartSingle.rda

data/RegulatoryFeaturesBiomartAll.rda

data/RegulatoryFeaturesBiomartMultiple.rda

data/RegulatoryFeaturesBiomartSingle.rda

data/RegulatorySegmentsBiomartAll.rda

data/RegulatorySegmentsBiomartMultiple.rda

data/RegulatorySegmentsBiomartSingle.rda

data/SegmentalDupsUCSC.rda

data/StomachIG.rda

data/StomachIGtrack.rda

data/allIG.rda

data/allIGtrack.rda

data/allimprintedIG.rda

data/allimprintedIGtrack.rda

data/bindMotifsBiomartTrackAll.rda

data/bindMotifsBiomartTrackMultiple.rda

data/bindMotifsBiomartTrackSingle.rda

data/bindingMotifsBiomartAll.rda

data/bindingMotifsBiomartMultiple.rda

data/bindingMotifsBiomartSingle.rda

data/chipTFtrack.rda

data/chipTFtrack_old.rda

data/chromHMM_RoadMapAll.rda

data/chromHMM_RoadMapAllE063.rda

data/chromHMM_RoadMapMultiple.rda

data/chromHMM_RoadMapSingle.rda

data/chromatinHMMRoadMapAll.rda

data/chromatinHMMRoadMapMultiple.rda

data/chromatinHMMRoadMapSingle.rda

data/chromhmmNoPattern.rda

data/chromhmmPattern.rda

data/chromhmmtrackone.rda

data/clinVarMaintrack.rda

data/coreilVarianttrack.rda

data/cosmicVarianttrack.rda

data/cpgIslandsUCSC.rda

data/cpgIslandtrack.rda

data/datalist

data/dgfootprints_RoadMapSingle.rda

data/dnasetrack.rda

data/dyaRM.rda

data/dyaRMtrack.rda

data/eGTexTrackSNP.rda

data/eGTexTrackall.rda

data/eQTLAll.rda

data/eQTLMultiple.rda

data/eQTLSingle.rda

data/eQTLTrackAll.rda

data/eQTLTrackMultiple.rda

data/eQTLTrackSingle.rda

data/enhFANTOMtrack.rda

data/enhRM.rda

data/enhRMtrack.rda

data/gadtrack.rda

data/gcContent.rda

data/gctrack.rda

data/geneENSEMBLtrack.rda

data/geneNameEnsembl.rda

data/genesENSEMBL.rda

data/genesGencodetrack.rda

data/genesNameENSEMBL.rda

data/genesUcsctrack.rda

data/genetrack4RM.rda

data/genetrack4psiGTEX.rda

data/grtrack4eGTex.rda

data/histonalltrack.rda

data/histoneonetrack.rda

data/imprintedGenesGTEx.rda

data/interestGenesENSEMBL.rda

data/interestTranscriptENSEMBL.rda

data/interestgenesENSEMBLtrack.rda

data/interestgenesENSMBLtrack.rda

data/interesttransENSMBLtrack.rda

data/knownGenesUCSC.rda

data/matrix_HiC_Rao.rda

data/metQTLSingle.rda

data/metQTLTrackAll.rda

data/metQTLTrackMultiple.rda

data/metQTLTrackSingle.rda

data/miRNATargetRegionsBiomart.rda

data/miRNATargetRegionsBiomartTrack.rda

data/otherRegulatoryRegionsTrackAll.rda

data/otherRegulatoryRegionsTrackSingle.rda

data/promRMtrack.rda

data/promRMtrackE063.rda

data/psiGTex.rda

data/psiGTexTrackSNP.rda

data/psiGTexTrackall.rda

data/refGenesUCSC.rda

data/regulationENSEMBLtrack.rda

data/regulatoryEvidenceBiomartTrackAll.rda

data/regulatoryEvidenceBiomartTrackMultiple.rda

data/regulatoryEvidenceBiomartTrackSingle.rda

data/regulatoryFeaturesBiomartTrackAll.rda

data/regulatoryFeaturesBiomartTrackMultiple.rda

data/regulatoryFeaturesBiomartTrackSingle.rda

data/regulatorySegmentsBiomartTrackAll.rda

data/regulatorySegmentsBiomartTrackMultiple.rda

data/regulatorySegmentsBiomartTrackSingle.rda

data/repeatMaskerTrack.rda

data/snpBiomart.rda

data/snpBiomarttrack.rda

data/snpUCSCtrack.rda

data/snptrack.rda

data/strucBiomarttrack.rda

data/structureBiomart.rda

data/tfbsFANTOMtrack.rda

data/transENSMBLtrack.rda

data/xenogenestrack.rda

data/xenorefGenesUCSC.rda

inst/CITATION

inst/extdata/ENCODE/TFmotifs_colors.csv

inst/extdata/ENCODE/motifs1000_matches_ENCODE.txt

inst/extdata/FANTOM/Fantom_hg19.AP1_MA0099.2.sites.txt

inst/extdata/FANTOM/human_permissive_enhancers_phase_1_and_2.bed

inst/extdata/GTEX/GTEx_imprinted_genes_v3_2015.csv

inst/extdata/GTEX/eQTL_Uterus_Analysis_extract100.snpgenes

inst/extdata/GTEX/gencode.v19.genes.patched_contigs.gtf

inst/extdata/GTEX/psiQTL_Assoc-total.AdiposeTissue.txt

inst/extdata/GTEX/sQTL_HeartLeftVentricle.Altrans.FDR05.bestPerLink

inst/extdata/GTEX/sQTLs-Blood-sQTLseekeR-FDR05.tsv

inst/extdata/HiC/chr1_1mb.KRnorm

inst/extdata/HiC/chr1_1mb.RAWobserved

inst/extdata/HiC/chr1_1mb_example961.RAWobserved

inst/extdata/JpegTables/BindingMotifsBiomart.jpg

inst/extdata/JpegTables/ChromHMM.jpg

inst/extdata/JpegTables/ChromHMM_UCSC.jpg

inst/extdata/JpegTables/ChromHMM_coMET.jpg

inst/extdata/JpegTables/ISCATrack.jpg

inst/extdata/JpegTables/ISCATrack_old.jpg

inst/extdata/JpegTables/OtherRegulatoryRegions.jpg

inst/extdata/JpegTables/RegulatoryElementsENSEMBL.jpg

inst/extdata/JpegTables/RegulatoryEvidence_1.jpg

inst/extdata/JpegTables/RegulatoryEvidence_2.jpg

inst/extdata/JpegTables/RegulatoryEvidence_3.jpg

inst/extdata/JpegTables/RegulatoryFeaturesBiomart.jpg

inst/extdata/JpegTables/RegulatorySegmentsBiomart.jpg

inst/extdata/JpegTables/RoadMap15_RoadMap.jpg

inst/extdata/JpegTables/RoadMap18_RoadMap.jpg

inst/extdata/JpegTables/RoadMap18_coMET.jpg

inst/extdata/JpegTables/RoadMap25_RoadMap.jpg

inst/extdata/JpegTables/RoadMap25_coMET.jpg

inst/extdata/JpegTables/bindingMotifBiomart.jpg

inst/extdata/JpegTables/eQTL.jpg

inst/extdata/JpegTables/metQTL.jpg

inst/extdata/JpegTables/structureBiomart.jpg

inst/extdata/RoadMap/CD3-DS17198.hg19_subset.bed

inst/extdata/RoadMap/E063_15_coreMarks_mnemonics.bed

inst/extdata/RoadMap/regions_dyadic_E001.bed

inst/extdata/RoadMap/regions_prom_E001.bed

inst/extdata/RoadMap/regions_prom_E063.bed

inst/extdata/config_cyp1b1_zoom.txt

inst/extdata/config_cyp1b1_zoom_4comet.txt

inst/extdata/config_cyp1b1_zoom_4cometnopval.txt

inst/extdata/config_cyp1b1_zoom_4cometnopval_Grch38.txt

inst/extdata/config_cyp1b1_zoom_4nomatrix.txt

inst/extdata/config_cyp1b1_zoom_4nomatrix_Grch38.txt

inst/extdata/config_cyp1b1_zoom_4webserver.txt

inst/extdata/config_cyp1b1_zoom_4webserver_Grch38.txt

inst/extdata/config_gata55_larger_article.txt

inst/extdata/config_gata55_larger_article_rev.txt

inst/extdata/cyp1b1_infofile.bed

inst/extdata/cyp1b1_infofile.txt

inst/extdata/cyp1b1_infofile_Grch38.txt

inst/extdata/cyp1b1_infofile_bed.txt

inst/extdata/cyp1b1_infofile_bed_v2.bed

inst/extdata/cyp1b1_infofile_bed_v2.txt

inst/extdata/cyp1b1_infofile_bed_v2_hg38.bed

inst/extdata/cyp1b1_infofile_bed_v3.bed

inst/extdata/cyp1b1_infofile_bed_v3.txt

inst/extdata/cyp1b1_infofile_bed_v3_hg38.bed

inst/extdata/cyp1b1_infofile_exprGene_region.txt

inst/extdata/cyp1b1_infofile_exprGene_region_Grch38.txt

inst/extdata/cyp1b1_infofile_exprGene_region_v2.csv

inst/extdata/cyp1b1_res37_cormatrix_list_BH05.txt

inst/extdata/cyp1b1_res37_rawMatrix.txt

inst/extdata/cyp1b1_zoom_plus_name_expr.pdf

inst/extdata/datalist

inst/extdata/eQTL.bed

inst/extdata/gata4_55probes_info.txt

inst/extdata/gata4_55probes_rawMatrix.txt

inst/extdata/gata4_55probes_residuals.txt

inst/extdata/gata4_95probes_info.txt

inst/extdata/gata_comet_55probes_large_article.eps

inst/extdata/gata_comet_55probes_large_article_gene.eps

inst/extdata/gata_comet_55probes_large_article_rev.eps

inst/extdata/metQTL.bed

inst/extdata/test_examples/test_differentExample.R

inst/unitTests/ChangeLog.txt

inst/unitTests/Citation.txt

vignettes/biblio.bib

vignettes/coMET.Rnw

www/Readme.md

www/comet/DESCRIPTION

www/comet/server.R www/comet/ui.R

www/cometpdf/DESCRIPTION

www/cometpdf/server.R www/cometpdf/ui.R

www/conf/shiny-server.conf

www/config_cyp1b1_zoom.txt

www/config_cyp1b1_zoom_4webserver.txt

www/cyp1b1_infofile.txt

www/cyp1b1_infofile_exprGene_region.txt

www/cyp1b1_res37_rawMatrix.txt

www/cyp1b1_zoom_plus_name_expr.jpg

www/cyp1b1_zoom_plus_name_expr.pdf

www/cyp1b1info.txt

www/cyp1b1info_expr_reduce_region.txt

www/cyp1b1res_37.txt

www/minimal-cometwebPlot.jpeg

TiphaineCMartin/coMET documentation built on April 27, 2022, 6:45 a.m.

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TiphaineCMartin/coMET
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns

Files in TiphaineCMartin/coMET
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns

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TiphaineCMartin/coMET coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns

Files in TiphaineCMartin/coMET coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns

R Package Documentation

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We want your feedback!

TiphaineCMartin/coMET
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns

Files in TiphaineCMartin/coMET
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methylation patterns