Files in a3609640/eIF4F.analysis
A R package to analyze eIF4F subunits in human cancers

.Rbuildignore

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.github/workflows/pkgdown.yaml

.github/workflows/r.yml

.gitignore

DESCRIPTION

LICENSE.md

NAMESPACE

R/CNV.R R/COR.R R/DEG.R R/Load.R R/PCA.R R/Proteomics.R R/RNAProCorr.R R/Survival.R R/eIF4F.analysis-package.R R/utils-pipe.R README.Rmd README.md README_WINDOWS.md Script/Analysis-Developmental.R Script/Analysis.R Script/Download.R

_pkgdown.yml

docs/404.html

docs/LICENSE.html

docs/articles/eIF4F_analysis.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/EIF4F_CNV_analysis.html

docs/reference/EIF4F_Corrgene_analysis.html

docs/reference/EIF4F_DEG_analysis.html

docs/reference/EIF4F_PCA.html

docs/reference/EIF4F_Proteomics_analysis.html

docs/reference/EIF4F_RNA_pro_correlation.html

docs/reference/EIF4F_Survival_analysis.html

docs/reference/Rplot001.png

docs/reference/color.html

docs/reference/dot-CNV_all_cancer.html

docs/reference/dot-CNV_barplot.html

docs/reference/dot-CNV_ind_cancer.html

docs/reference/dot-CNV_sum_barplot.html

docs/reference/dot-CNVratio_boxplot.html

docs/reference/dot-CNVratio_tumor.html

docs/reference/dot-CORs_coeff_heatmap.html

docs/reference/dot-CORs_summary_bargraph.html

docs/reference/dot-CORs_vennplot.html

docs/reference/dot-EIF_correlation.html

docs/reference/dot-KM_curve.html

docs/reference/dot-RNApro_scatterplot.html

docs/reference/dot-RNAratio_boxplot.html

docs/reference/dot-RNAratio_calculation.html

docs/reference/dot-RNAratio_selection.html

docs/reference/dot-RNAratio_tumortype.html

docs/reference/dot-RNAseq_PCA.html

docs/reference/dot-RNAseq_all_gene.html

docs/reference/dot-RNAseq_boxplot.html

docs/reference/dot-RNAseq_grouped_boxplot.html

docs/reference/dot-RNAseq_ind_gene.html

docs/reference/dot-RNAseq_tumortype.html

docs/reference/dot-biplot.html

docs/reference/dot-biplot_title.html

docs/reference/dot-combine_CORs_list.html

docs/reference/dot-combine_CORs_summary.html

docs/reference/dot-correlation_coefficient.html

docs/reference/dot-forest_graph.html

docs/reference/dot-get_CCLE_Proteomics_subset.html

docs/reference/dot-get_CCLE_RNAseq_subset.html

docs/reference/dot-get_CPTAC_LUAD_Phosproteomics_subset.html

docs/reference/dot-get_CPTAC_LUAD_Proteomics_subset.html

docs/reference/dot-get_TCGA_CNV.html

docs/reference/dot-get_TCGA_CNV_ratio.html

docs/reference/dot-get_TCGA_CNV_value.html

docs/reference/dot-get_TCGA_GTEX_RNAseq.html

docs/reference/dot-get_TCGA_RNAseq.html

docs/reference/dot-get_cluster_genes.html

docs/reference/dot-get_df_subset.html

docs/reference/dot-is_significant_correlation.html

docs/reference/dot-is_significant_negcor.html

docs/reference/dot-is_significant_poscor.html

docs/reference/dot-matrix_plot.html

docs/reference/dot-multivariable_analysis.html

docs/reference/dot-pathway_dotplot.html

docs/reference/dot-plot_Corr_RNAseq_TCGA_GTEX.html

docs/reference/dot-plot_CoxPH_RNAseq_TCGA.html

docs/reference/dot-plot_KM_RNAseq_TCGA.html

docs/reference/dot-plot_PCA_CPTAC_LUAD.html

docs/reference/dot-plot_PCA_TCGA_GTEX.html

docs/reference/dot-plot_PCA_TCGA_GTEX_tumor.html

docs/reference/dot-plot_bargraph_CNV_TCGA.html

docs/reference/dot-plot_boxgraph_CNVratio_TCGA.html

docs/reference/dot-plot_boxgraph_RNAratio_TCGA.html

docs/reference/dot-plot_boxgraph_RNAseq_TCGA.html

docs/reference/dot-plot_boxgraph_protein_CPTAC.html

docs/reference/dot-plot_matrix_CNVcorr_TCGA.html

docs/reference/dot-plot_scatter_RNApro_CCLE.html

docs/reference/dot-plot_scatter_RNApro_LUAD.html

docs/reference/dot-plot_scatterplot_protein_CPTAC.html

docs/reference/dot-protein_boxplot.html

docs/reference/dot-protein_imputePCA.html

docs/reference/dot-protein_scatterplot.html

docs/reference/dot-selected_biplot.html

docs/reference/dot-summarize_counts.html

docs/reference/dot-univariable_analysis.html

docs/reference/dot-violinplot.html

docs/reference/eIF4F.analysis-package.html

docs/reference/index.html

docs/reference/initialize_RNAseq_data.html

docs/reference/initialize_cnv_data.html

docs/reference/initialize_data.html

docs/reference/initialize_dir.html

docs/reference/initialize_format.html

docs/reference/initialize_phosphoproteomics_data.html

docs/reference/initialize_proteomics_data.html

docs/reference/initialize_survival_data.html

docs/reference/pipe.html

docs/sitemap.xml

eIF4F.analysis.Rproj

man/EIF4F_CNV_analysis.Rd man/EIF4F_Corrgene_analysis.Rd man/EIF4F_DEG_analysis.Rd man/EIF4F_PCA.Rd man/EIF4F_Proteomics_analysis.Rd man/EIF4F_RNA_pro_correlation.Rd man/EIF4F_Survival_analysis.Rd man/color.Rd man/dot-CNV_all_cancer.Rd man/dot-CNV_barplot.Rd man/dot-CNV_ind_cancer.Rd man/dot-CNV_sum_barplot.Rd man/dot-CNVratio_boxplot.Rd man/dot-CNVratio_tumor.Rd man/dot-CORs_coeff_heatmap.Rd man/dot-CORs_summary_bargraph.Rd man/dot-CORs_vennplot.Rd man/dot-EIF_correlation.Rd man/dot-KM_curve.Rd man/dot-RNApro_scatterplot.Rd man/dot-RNAratio_boxplot.Rd man/dot-RNAratio_calculation.Rd man/dot-RNAratio_selection.Rd man/dot-RNAratio_tumortype.Rd man/dot-RNAseq_PCA.Rd man/dot-RNAseq_all_gene.Rd man/dot-RNAseq_boxplot.Rd man/dot-RNAseq_grouped_boxplot.Rd man/dot-RNAseq_ind_gene.Rd man/dot-RNAseq_tumortype.Rd man/dot-biplot.Rd man/dot-biplot_title.Rd man/dot-combine_CORs_list.Rd man/dot-combine_CORs_summary.Rd man/dot-correlation_coefficient.Rd man/dot-forest_graph.Rd man/dot-get_CCLE_Proteomics_subset.Rd man/dot-get_CCLE_RNAseq_subset.Rd man/dot-get_CPTAC_LUAD_Phosproteomics_subset.Rd man/dot-get_CPTAC_LUAD_Proteomics_subset.Rd man/dot-get_TCGA_CNV.Rd man/dot-get_TCGA_CNV_ratio.Rd man/dot-get_TCGA_CNV_value.Rd man/dot-get_TCGA_GTEX_RNAseq.Rd man/dot-get_TCGA_RNAseq.Rd man/dot-get_cluster_genes.Rd man/dot-get_df_subset.Rd man/dot-is_significant_correlation.Rd man/dot-is_significant_negcor.Rd man/dot-is_significant_poscor.Rd man/dot-matrix_plot.Rd man/dot-multivariable_analysis.Rd man/dot-pathway_dotplot.Rd man/dot-plot_Corr_RNAseq_TCGA_GTEX.Rd man/dot-plot_CoxPH_RNAseq_TCGA.Rd man/dot-plot_KM_RNAseq_TCGA.Rd man/dot-plot_PCA_CPTAC_LUAD.Rd man/dot-plot_PCA_TCGA_GTEX.Rd man/dot-plot_PCA_TCGA_GTEX_tumor.Rd man/dot-plot_bargraph_CNV_TCGA.Rd man/dot-plot_boxgraph_CNVratio_TCGA.Rd man/dot-plot_boxgraph_RNAratio_TCGA.Rd man/dot-plot_boxgraph_RNAseq_TCGA.Rd man/dot-plot_boxgraph_protein_CPTAC.Rd man/dot-plot_matrix_CNVcorr_TCGA.Rd man/dot-plot_scatter_RNApro_CCLE.Rd man/dot-plot_scatter_RNApro_LUAD.Rd man/dot-plot_scatterplot_protein_CPTAC.Rd man/dot-protein_boxplot.Rd man/dot-protein_imputePCA.Rd man/dot-protein_scatterplot.Rd man/dot-selected_biplot.Rd man/dot-summarize_counts.Rd man/dot-univariable_analysis.Rd man/dot-violinplot.Rd man/eIF4F.analysis-package.Rd

man/figures/eIF4F.analysis.dic.png

man/figures/eIF4F.analysis.download.png

man/figures/eIF4F.analysis.png

man/figures/eIF4F.analysis.script.png

man/figures/ouput.png

man/initialize_RNAseq_data.Rd man/initialize_cnv_data.Rd man/initialize_data.Rd man/initialize_dir.Rd man/initialize_format.Rd man/initialize_phosphoproteomics_data.Rd man/initialize_proteomics_data.Rd man/initialize_survival_data.Rd man/pipe.Rd

references.bib

vignettes/.gitignore

vignettes/eIF4F_analysis.Rmd

vignettes/images/CNV.png

vignettes/images/CORs.png

vignettes/images/DEG.png

vignettes/images/PCA.png

vignettes/images/Processed.png

vignettes/images/Proteomics.png

vignettes/images/RNApro.png

vignettes/images/survival.png

a3609640/eIF4F.analysis documentation built on Jan. 2, 2023, 11:19 p.m.

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a3609640/eIF4F.analysis
A R package to analyze eIF4F subunits in human cancers

Files in a3609640/eIF4F.analysis
A R package to analyze eIF4F subunits in human cancers

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a3609640/eIF4F.analysis A R package to analyze eIF4F subunits in human cancers

Files in a3609640/eIF4F.analysis A R package to analyze eIF4F subunits in human cancers

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a3609640/eIF4F.analysis
A R package to analyze eIF4F subunits in human cancers

Files in a3609640/eIF4F.analysis
A R package to analyze eIF4F subunits in human cancers