4.2 - Schematic plotsUpdated 12 months ago

Tiago Chedraoui Silva

Rendered from plots_schematic.Rmd in ELMER 2.29.0.
Classifiers methodsUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from classifiers.Rmd in TCGAbiolinks 2.33.0.
TCGAbiolinks: Searching GDC databaseUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from query.Rmd in TCGAbiolinks 2.33.0.
TCGAbiolinks: Clinical dataUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from clinical.Rmd in TCGAbiolinks 2.33.0.
TCGAbiolinks: Searching, downloading and visualizing mutation filesUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from mutation.Rmd in TCGAbiolinks 2.33.0.
Analyzing and visualizing TCGA dataUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from analysis.Rmd in TCGAbiolinks 2.33.0.
3.2 - Identifying differentially methylated probesUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from analysis_diff_meth.Rmd in ELMER 2.29.0.
3.3 - Identifying putative probe-gene pairsUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from analysis_get_pair.Rmd in ELMER 2.29.0.
3.4 - Motif enrichment analysis on the selected probesUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from analysis_motif_enrichment.Rmd in ELMER 2.29.0.
3.5 - Identifying regulatory TFsUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from analysis_regulatory_tf.Rmd in ELMER 2.29.0.
4.4 - Regulatory TF plotsUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from plots_TF.Rmd in ELMER 2.29.0.
TCGAbiolinks: Downloading and preparing files for analysisUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from download_prepare.Rmd in TCGAbiolinks 2.33.0.
Compilation of TCGA molecular subtypesUpdated 1 years ago

Tiago Chedraoui Silva

Rendered from subtypes.Rmd in TCGAbiolinks 2.33.0.
Case StudiesUpdated 2 years ago

Tiago Chedraoui Silva

Rendered from casestudy.Rmd in TCGAbiolinks 2.33.0.
Stemness scoreUpdated 2 years ago

Tiago Chedraoui Silva

Rendered from stemness_score.Rmd in TCGAbiolinks 2.33.0.
2 - Introduction: Input dataUpdated 3 years ago

Tiago Chedraoui Silva

Rendered from input.Rmd in ELMER 2.29.0.
IntroductionUpdated 3 years ago

Tiago Chedraoui Silva

Rendered from index.Rmd in TCGAbiolinks 2.33.0.
11 - ELMER: Use caseUpdated 3 years ago

Tiago Chedraoui Silva

Rendered from usecase.Rmd in ELMER 2.29.0.
3.1 - Data input - Creating MAE objectUpdated 3 years ago

Tiago Chedraoui Silva

Rendered from analysis_data_input.Rmd in ELMER 2.29.0.
4.1 - Scatter plotsUpdated 4 years ago

Tiago Chedraoui Silva

Rendered from plots_scatter.Rmd in ELMER 2.29.0.
4.5 - Heatmap plotsUpdated 4 years ago

Tiago Chedraoui Silva

Rendered from plots_heatmap.Rmd in ELMER 2.29.0.
5 - Integrative analysis workshop with TCGAbiolinks and ELMER - Analysis GUIUpdated 4 years ago

Tiago Chedraoui Silva

Rendered from analysis_gui.Rmd in ELMER 2.29.0.
4.3 - Motif enrichment plotsUpdated 4 years ago

Tiago Chedraoui Silva

Rendered from plots_motif_enrichment.Rmd in ELMER 2.29.0.
3.6 - TCGA.pipe: Running ELMER for TCGA data in a compact wayUpdated 4 years ago

Tiago Chedraoui Silva

Rendered from pipe.Rmd in ELMER 2.29.0.
TCGAbiolinks version bump with new functionsUpdated 6 years ago

Mohamed Mounir

Rendered from extension.Rmd in TCGAbiolinks 2.33.0.
ELMER v.2: An R/Bioconductor package to reconstruct gene regulatory networks from DNA methylation and transcriptome profilesUpdated 6 years ago

Tiago Chedraoui Silva [aut], Lijing Yao [aut], Simon Coetzee [aut], Nicole Gull [ctb], Houtan Noushmehr [ctb], Dennis J. Hazelett [ctb], Peggy Farnham [aut], Hui Shen [ctb], Peter Laird [ctb], De-Chen Lin[ctb], Benjamin P. Berman [aut]

Rendered from index.Rmd in ELMER 2.29.0.