Files in isglobal-brge/brge_data_large
Exposures, Gene Expression and Methylation data for ilustration purpouses
.Rbuildignore
.gitattributes
.gitignore
BRGEdata.Rproj
DESCRIPTION
LICENSE
NAMESPACE
R/BRGEdata.R
R/brge_expo.R
R/brge_gexp.R
R/brge_methy.R
R/brge_prot.R
README.md
chr22_small.vcf.gz
data/Cohort1_Methyl_C_blood_0y_450K.Rdata
data/Cohort2_Methyl_C_blood_0y_450K.Rdata
data/Cohort3_Methyl_C_blood_0y_450K.Rdata
data/ExposomeDataChallenge2021/HELIX_serum_metabol_report_IC_v4_APS_2017_04_06.pdf
data/ExposomeDataChallenge2021/HELIX_urine_metabol_report_IC_v3_CHL_2017_01_26.pdf
data/ExposomeDataChallenge2021/codebook.xlsx
data/ExposomeDataChallenge2021/exposome.RData
data/ExposomeDataChallenge2021/exposome_NA.RData
data/ExposomeDataChallenge2021/genexpr.Rdata
data/ExposomeDataChallenge2021/genexpr/genexpr_BIB.Rdata
data/ExposomeDataChallenge2021/genexpr/genexpr_EDE.Rdata
data/ExposomeDataChallenge2021/genexpr/genexpr_KAN.Rdata
data/ExposomeDataChallenge2021/genexpr/genexpr_MOB.Rdata
data/ExposomeDataChallenge2021/genexpr/genexpr_RHE.Rdata
data/ExposomeDataChallenge2021/genexpr/genexpr_SAB.Rdata
data/ExposomeDataChallenge2021/metabol_serum.Rdata
data/ExposomeDataChallenge2021/metabol_urine.Rdata
data/ExposomeDataChallenge2021/methy/methy_BIB.Rdata
data/ExposomeDataChallenge2021/methy/methy_EDE.Rdata
data/ExposomeDataChallenge2021/methy/methy_KAN.Rdata
data/ExposomeDataChallenge2021/methy/methy_MOB.Rdata
data/ExposomeDataChallenge2021/methy/methy_RHE.Rdata
data/ExposomeDataChallenge2021/methy/methy_SAB.Rdata
data/ExposomeDataChallenge2021/proteome.Rdata
data/GSE40732.Rdata
data/GSE40732_1.Rdata
data/GSE40732_2.Rdata
data/GSE57225.Rdata
data/GSE6012.Rdata
data/asthma.rda
data/breastMulti.rda
data/breastMulti_list.rda
data/brge_expo.rda
data/brge_gexp.rda
data/brge_methy.rda
data/brge_prot.rda
data/cadset_one.csv
data/cadset_two.csv
data/ega_synthetic_data_phenotypes.tsv
data/es.control.panel.rda
data/exposomeSet.Rdata
data/exposomeSet_pca.Rdata
data/genesAD.rda
data/grs.control.panel.rda
data/gse66351_1.rda
data/gse66351_2.rda
data/gwascatalog.rda
data/lusc.rda
data/merged_cineca.gds
data/rse_gene_liver.Rdata
inst/extdata/.DS_Store
inst/extdata/CTDquerier_examples/HGNC_Genes.tsv
inst/extdata/CTDquerier_examples/bq_xkr4_chem.tsv
inst/extdata/CTDquerier_examples/bq_xkr4_disease_all.tsv
inst/extdata/CTDquerier_examples/bq_xkr4_disease_curated.tsv
inst/extdata/CTDquerier_examples/bq_xkr4_disease_inferred.tsv
inst/extdata/CTDquerier_examples/gala_table_e1.csv
inst/extdata/GWAS_example/README.md
inst/extdata/GWAS_example/chr10_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr10_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr10_maf_filtered_small_A.vcf.gz.tbi
inst/extdata/GWAS_example/chr10_maf_filtered_small_A.vcf.gz_2
inst/extdata/GWAS_example/chr10_maf_filtered_small_A.vcf.gz_2.bgz
inst/extdata/GWAS_example/chr10_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr10_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr11_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr11_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr11_maf_filtered_small_A.vcf.gz.tbi
inst/extdata/GWAS_example/chr11_maf_filtered_small_A.vcf.gz_2
inst/extdata/GWAS_example/chr11_maf_filtered_small_A.vcf.gz_2.bgz
inst/extdata/GWAS_example/chr11_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr11_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr12_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr12_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr12_maf_filtered_small_A.vcf.gz.tbi
inst/extdata/GWAS_example/chr12_maf_filtered_small_A.vcf.gz_2
inst/extdata/GWAS_example/chr12_maf_filtered_small_A.vcf.gz_2.bgz
inst/extdata/GWAS_example/chr12_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr12_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr13_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr13_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr13_maf_filtered_small_A.vcf.gz.tbi
inst/extdata/GWAS_example/chr13_maf_filtered_small_A.vcf.gz_2
inst/extdata/GWAS_example/chr13_maf_filtered_small_A.vcf.gz_2.bgz
inst/extdata/GWAS_example/chr13_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr13_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr14_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr14_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr14_maf_filtered_small_A.vcf.gz.tbi
inst/extdata/GWAS_example/chr14_maf_filtered_small_A.vcf.gz_2
inst/extdata/GWAS_example/chr14_maf_filtered_small_A.vcf.gz_2.bgz
inst/extdata/GWAS_example/chr14_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr14_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr15_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr15_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr15_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr15_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr15_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr16_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr16_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr16_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr16_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr16_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr17_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr17_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr17_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr17_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr17_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr18_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr18_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr18_maf_filtered_small_A.vcf.gz.tbi
inst/extdata/GWAS_example/chr18_maf_filtered_small_A.vcf.gz_2
inst/extdata/GWAS_example/chr18_maf_filtered_small_A.vcf.gz_2.bgz
inst/extdata/GWAS_example/chr18_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr18_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr19_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr19_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr19_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr19_maf_filtered_small_A.vcf.gz_2.bgz
inst/extdata/GWAS_example/chr19_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr19_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr1_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr1_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr1_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr1_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr1_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr20_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr20_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr20_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr20_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr21_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr21_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr21_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr21_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr2_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr2_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr2_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr2_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr2_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr3_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr3_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr3_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr3_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr3_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr4_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr4_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr4_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr4_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr4_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr5_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr5_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr5_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr5_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr5_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr6_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr6_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr6_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr6_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr6_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr7_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr7_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr7_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr7_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr7_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr8_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr8_maf_filtered_small_A.vcf.gz
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inst/extdata/GWAS_example/chr8_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr8_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/chr9_maf_filtered_small.vcf.gz
inst/extdata/GWAS_example/chr9_maf_filtered_small_A.vcf.gz
inst/extdata/GWAS_example/chr9_maf_filtered_small_A.vcf.gz.tbi
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inst/extdata/GWAS_example/chr9_maf_filtered_small_B.vcf.gz
inst/extdata/GWAS_example/chr9_maf_filtered_small_C.vcf.gz
inst/extdata/GWAS_example/ega_synthetic_data_phenotypes.tsv
inst/extdata/GWAS_example/ega_synthetic_data_phenotypes_treated_with_nas.tsv
inst/extdata/GWAS_example/ega_synthetic_data_phenotypes_treated_with_nas1.tsv
inst/extdata/GWAS_example/ega_synthetic_data_phenotypes_treated_with_nas2.tsv
inst/extdata/GWAS_example/ega_synthetic_data_phenotypes_treated_with_nas3.tsv
inst/extdata/GWAS_example/phenotypes_samples1.tsv
inst/extdata/GWAS_example/phenotypes_samples2.tsv
inst/extdata/GWAS_example/phenotypes_samples3.tsv
inst/extdata/GWAS_students/data_dictionary.xlsx
inst/extdata/GWAS_students/ega_synthetic_phenotypes.tsv
inst/extdata/GWAS_students/ega_synthetic_snps_600k.zip
inst/extdata/brge.bed
inst/extdata/brge.bim
inst/extdata/brge.fam
inst/extdata/brge.gds
inst/extdata/brge.phe
inst/extdata/brge.txt
inst/extdata/brge.vcf.gz
inst/extdata/co2_mississippi.tsv
inst/extdata/co2_quebec.tsv
inst/extdata/ega_metadata.txt
inst/extdata/exposome_1.txt
inst/extdata/exposome_2.txt
inst/extdata/exposome_3.txt
inst/extdata/madData/CASE369.txt
inst/extdata/madData/CASE371.txt
inst/extdata/madData/CASE377.txt
inst/extdata/madData/CONTROL152.txt
inst/extdata/madData/CONTROL191.txt
inst/extdata/obesity.bed
inst/extdata/obesity.bim
inst/extdata/obesity.fam
inst/extdata/obesity.txt
inst/extdata/obestity.zip
inst/extdata/rawData/FEMALE_2291.txt
inst/extdata/rawData/FEMALE_2439.txt
inst/extdata/rawData/MADLoy_rawData.zip
inst/extdata/rawData/SAMPLE_10.txt
inst/extdata/rawData/SAMPLE_100.txt
inst/extdata/rawData/SAMPLE_101.txt
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inst/extdata/rawData/SAMPLE_116.txt
inst/extdata/rawData/SAMPLE_117.txt
inst/extdata/rawData/SAMPLE_118.txt
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inst/extdata/rawData/SAMPLE_12.txt
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inst/extdata/rawData/SAMPLE_5.txt
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inst/extdata/rawData/SAMPLE_9.txt
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inst/extdata/rawData/SAMPLE_96.txt
inst/extdata/rawData/SAMPLE_97.txt
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inst/extdata/rawData/SAMPLE_99.txt
man/asthma.Rd
man/brge_expo.Rd
man/brge_gexp.Rd
man/brge_methy.Rd
man/brge_prot.Rd
man/brgedata.Rd
man/gwascatalog.Rd
man/lusc.Rd
vignettes/general_description.Rmd
