Man pages for graeberlab/small.cell.project
small.cell.project
| create_log_tcga_files_cancer | create log tcga files |
| create_log_tcga_files_normal | create log tcga files |
| create_RRHO_file_intersect_then_rank | create RRHO file after intersecting |
| create_tcga_boxplots | create tcga boxplots |
| create_tcga_methyl_files | Create methylation files for TCGA cancers using defined sets... |
| do_full_boxplot_meth | create tcga boxplots |
| do_full_boxplot_RNA | create tcga boxplots |
| do.survival | does survival analysis |
| intersect_all | Intersects all lists |
| intersect_doPCA_from_file_and_project_second_dataset | PCA from file and project second dataset |
| intersect_log_doPCA_from_file_and_project_second_dataset | PCA from file and project second dataset after taking log of... |
| log_PCA_from_file | PCA from file after taking log2 |
| make_loadings_gctfile | Format PCA loadings for IGV |
| make_scores_file | Makes scores file for IGV |
| MINT.PLSDA_from_file_and_predict_second_dataset | MINT Partial Least Squares Discriminant Analysis and predict... |
| MINT.PLSR_from_file_and_predict_second_dataset | MINT Partial Least Squares and predict second dataset |
| PCA_from_file | PCA from file |
| PCA_from_file_and_predict_second_dataset | PCA and predict second dataset |
| pick.samples | Pick samples |
| plot_pca | Plot PCA |
| plot_pca_and_save | Plot PCA with save option |
| plot_pca_projection | Plot PCA projection and data points from original PCA |
| plot_pca_projection_all | Plot PCA projection and data points from original PCA with... |
| plot_pca_projection_and_save | Plot PCA projection with save option |
| plot_pca_projection_only | Plot PCA projection only |
| plot_pls | Plot PLS |
| PLSDA_from_file | Partial Least Squares from file |
| PLSDA_from_file_and_predict_second_dataset | Partial Least Squares and predict second dataset |
| PLSR_from_file | Partial Least Squares Reg from file |
| PLSR_from_file_and_predict_second_dataset | Partial Least Squares and predict second dataset |
| predict_MINT.PLSDA_graph | Predict all files in a folder using PLSDA of a training... |
| predict_MINT.PLSR_graph | Predict all files in a folder using PLSDA of a training... |
| predict_PCA_graph | Predict all files in a folder using PCA of a training... |
| predict_PLSDA_graph | Predict all files in a folder using PLSDA of a training... |
| predict_PLSR_graph | Predict all files in a folder using PLSR of a training... |
| pval_graph | does survival analysis |
| seg_to_gene | does survival analysis |
| simple_ttest | does survival analysis |
| tcga_boxplots | Partial Least Squares and predict second dataset |
