Files in Facottons/DOAGDC
A Package to Download, Organize and Analyze Genomic Data Commons (GDC) Data
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
NEWS
R/concatenate_exon.R
R/concatenate_gene_isoform.R
R/concatenate_methylation.R
R/concatenate_miRNA.R
R/concatenate_mutation.R
R/concatenate_protein.R
R/cross_co_expression.R
R/data.R
R/function_DESeq2.R
R/function_EBSeq.R
R/function_GSEA.R
R/function_PCA.Analysis.R
R/function_beta2M.R
R/function_clinical_terms.R
R/function_coexpression.R
R/function_coxph.R
R/function_crosstable.R
R/function_download.gdc.R
R/function_edgeR.R
R/function_goest.R
R/function_heatmap_new.R
R/function_noMclust.R
R/function_prepar2my_pack.R
R/function_reactome.R
R/zzz.R
README.md
data/annotation_table.rda
man/DOAGDC_Manual.pdf
man/annotation_table.Rd
man/beta2m_values.Rd
man/clinical_terms.Rd
man/co_expression.Rd
man/concatenate_exon.Rd
man/concatenate_expression.Rd
man/concatenate_methylation.Rd
man/concatenate_mirna.Rd
man/concatenate_mutation.Rd
man/concatenate_protein.Rd
man/cross_co_expression.Rd
man/dea_deseq2.Rd
man/dea_ebseq.Rd
man/dea_edger.Rd
man/do_react_enrich.Rd
man/download_gdc.Rd
man/draw_heatmap.Rd
man/gonto.Rd
man/groups_identification_cox_hr.Rd
man/groups_identification_mclust.Rd
man/gsea.Rd
man/pca_analysis.Rd
man/table2_doagdc.Rd
man/venn_diagram.Rd
resources/DOAGDC_logo.png
resources/VIGNETTE-PCA_GENETOP=all_G2_over_G1.png
resources/VIGNETTE-VolcanoPlot_Basic_G3_over_G1.png
resources/VIGNETTE-enrichGO_smallest_FDR_Ont_BP_upregulated_GeneID_G2_over_G1.png
resources/VIGNETTE-euclidean_average_row_FC.cutoff=2_G2_over_G1.png
resources/VIGNETTE-mixture_log2_expression_1.png
resources/VIGNETTE-package_flow.png
revdep/check.R
revdep/checks.rds
tests/testthat.R
tests/testthat/test-functions.R
vignettes/DOAGDC-vignette.pdf
vignettes/DOAGDC_logo.jpg
vignettes/VIGNETTE-package_flow.jpg
