fix file names

saezlab · Jun 6, 2024 · 8790b6d · 8790b6d
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diff --git a/vignettes/MOFA_to_COSMOS.md b/vignettes/MOFA_to_COSMOS.md
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Activity estimations-1.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Activity estimations-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Activity estimations-2.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Activity estimations-2.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Correlation between factors-1.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Correlation between factors-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Factor value per sample and factor-1.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Factor value per sample and factor-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Factor value per sample and factor-2.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Factor value per sample and factor-2.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Factor value per sample and factor-3.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Factor value per sample and factor-3.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Heatmap RNA view factor 2-1.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Heatmap RNA view factor 2-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Heatmap RNA view factor 4-1.png b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Heatmap RNA view factor 4-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-gfm/Plot b/vignettes/MOFA_to_COSMOS_files/figure-gfm/Plot
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Activity estimations-1.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Activity estimations-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Activity estimations-2.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Activity estimations-2.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Compare MOFA models-1.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Compare MOFA models-1.png
diff --git a/...s/MOFA_to_COSMOS_files/figure-markdown_github/Correlation between factors-1.png b/...s/MOFA_to_COSMOS_files/figure-markdown_github/Correlation between factors-1.png
diff --git a/...to_COSMOS_files/figure-markdown_github/Factor value per sample and factor-1.png b/...to_COSMOS_files/figure-markdown_github/Factor value per sample and factor-1.png
diff --git a/...to_COSMOS_files/figure-markdown_github/Factor value per sample and factor-2.png b/...to_COSMOS_files/figure-markdown_github/Factor value per sample and factor-2.png
diff --git a/...to_COSMOS_files/figure-markdown_github/Factor value per sample and factor-3.png b/...to_COSMOS_files/figure-markdown_github/Factor value per sample and factor-3.png
diff --git a/...ettes/MOFA_to_COSMOS_files/figure-markdown_github/Factor weights per view-1.png b/...ettes/MOFA_to_COSMOS_files/figure-markdown_github/Factor weights per view-1.png
diff --git a/...tes/MOFA_to_COSMOS_files/figure-markdown_github/Heatmap RNA view factor 2-1.png b/...tes/MOFA_to_COSMOS_files/figure-markdown_github/Heatmap RNA view factor 2-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Plot b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Plot
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-1.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-1.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-2.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-2.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-3.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-3.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-4.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-4.png
diff --git a/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-5.png b/vignettes/MOFA_to_COSMOS_files/figure-markdown_github/Preparing MOFA input-5.png
diff --git a/...tes/MOFA_to_COSMOS_files/figure-markdown_github/Total variance per factor-1.png b/...tes/MOFA_to_COSMOS_files/figure-markdown_github/Total variance per factor-1.png
diff --git a/.../MOFA_to_COSMOS_files/figure-markdown_github/Variance per view per factor-1.png b/.../MOFA_to_COSMOS_files/figure-markdown_github/Variance per view per factor-1.png
diff --git a/...m/Activity estimations for factor 4-1.png → ...t/Activity estimations for factor 4-1.png b/...m/Activity estimations for factor 4-1.png → ...t/Activity estimations for factor 4-1.png
diff --git a/...m/Activity estimations for factor 4-2.png → ...t/Activity estimations for factor 4-2.png b/...m/Activity estimations for factor 4-2.png → ...t/Activity estimations for factor 4-2.png
diff --git a/...mics compared to variance epxlained-1.png → ...mics compared to variance epxlained-1.png b/...mics compared to variance epxlained-1.png → ...mics compared to variance epxlained-1.png
diff --git a/...mics compared to variance epxlained-2.png → ...mics compared to variance epxlained-2.png b/...mics compared to variance epxlained-2.png → ...mics compared to variance epxlained-2.png
diff --git a/...mics compared to variance epxlained-3.png → ...mics compared to variance epxlained-3.png b/...mics compared to variance epxlained-3.png → ...mics compared to variance epxlained-3.png
diff --git a/...iles/figure-gfm/Compare MOFA models-1.png → ...markdown_strict/Compare MOFA models-1.png b/...iles/figure-gfm/Compare MOFA models-1.png → ...markdown_strict/Compare MOFA models-1.png
diff --git a/.../figure-gfm/Factor weights per view-1.png → ...down_strict/Factor weights per view-1.png b/.../figure-gfm/Factor weights per view-1.png → ...down_strict/Factor weights per view-1.png
diff --git a/... Ligand-receptor activity estimates-1.png → ... Ligand-receptor activity estimates-1.png b/... Ligand-receptor activity estimates-1.png → ... Ligand-receptor activity estimates-1.png
diff --git a/...gfm/Plot: Metabolite factor weights-1.png → ...rict/Plot Metabolite factor weights-1.png b/...gfm/Plot: Metabolite factor weights-1.png → ...rict/Plot Metabolite factor weights-1.png
diff --git a/...Plot: RNA weights & protein weights-1.png → ...lot RNA weights and protein weights-1.png b/...Plot: RNA weights & protein weights-1.png → ...lot RNA weights and protein weights-1.png
diff --git a/...Plot: RNA weights & protein weights-2.png → ...lot RNA weights and protein weights-2.png b/...Plot: RNA weights & protein weights-2.png → ...lot RNA weights and protein weights-2.png
diff --git a/...ure-gfm/Plot: TF activity estimates-1.png → ...n_strict/Plot TF activity estimates-1.png b/...ure-gfm/Plot: TF activity estimates-1.png → ...n_strict/Plot TF activity estimates-1.png
diff --git a/...les/figure-gfm/Preparing MOFA input-1.png → ...arkdown_strict/Preparing MOFA input-1.png b/...les/figure-gfm/Preparing MOFA input-1.png → ...arkdown_strict/Preparing MOFA input-1.png
diff --git a/...les/figure-gfm/Preparing MOFA input-2.png → ...arkdown_strict/Preparing MOFA input-2.png b/...les/figure-gfm/Preparing MOFA input-2.png → ...arkdown_strict/Preparing MOFA input-2.png
diff --git a/...les/figure-gfm/Preparing MOFA input-3.png → ...arkdown_strict/Preparing MOFA input-3.png b/...les/figure-gfm/Preparing MOFA input-3.png → ...arkdown_strict/Preparing MOFA input-3.png
diff --git a/...les/figure-gfm/Preparing MOFA input-4.png → ...arkdown_strict/Preparing MOFA input-4.png b/...les/figure-gfm/Preparing MOFA input-4.png → ...arkdown_strict/Preparing MOFA input-4.png
diff --git a/...les/figure-gfm/Preparing MOFA input-5.png → ...arkdown_strict/Preparing MOFA input-5.png b/...les/figure-gfm/Preparing MOFA input-5.png → ...arkdown_strict/Preparing MOFA input-5.png
diff --git a/.../figure-gfm/Run moon rec_to_TFmetab-1.png → ...down_strict/Run moon rec_to_TFmetab-1.png b/.../figure-gfm/Run moon rec_to_TFmetab-1.png → ...down_strict/Run moon rec_to_TFmetab-1.png
diff --git a/...gure condition_prot_RNA_correlation-1.png → ...gure condition_prot_RNA_correlation-1.png b/...gure condition_prot_RNA_correlation-1.png → ...gure condition_prot_RNA_correlation-1.png
diff --git a/... figure single_prot_RNA_correlation-1.png → ... figure single_prot_RNA_correlation-1.png b/... figure single_prot_RNA_correlation-1.png → ... figure single_prot_RNA_correlation-1.png
diff --git a/...igure-gfm/Total variance per factor-1.png → ...wn_strict/Total variance per factor-1.png b/...igure-gfm/Total variance per factor-1.png → ...wn_strict/Total variance per factor-1.png
diff --git a/...re-gfm/Variance per view per factor-1.png → ...strict/Variance per view per factor-1.png b/...re-gfm/Variance per view per factor-1.png → ...strict/Variance per view per factor-1.png
diff --git a/...les/figure-gfm/correlation RNA/prot-1.png → ...arkdown_strict/correlation RNA/prot-1.png b/...les/figure-gfm/correlation RNA/prot-1.png → ...arkdown_strict/correlation RNA/prot-1.png
diff --git a/...files/figure-gfm/run moon TF to lig-1.png → ...-markdown_strict/run moon TF to lig-1.png b/...files/figure-gfm/run moon TF to lig-1.png → ...-markdown_strict/run moon TF to lig-1.png