Man pages for NWhitener/benchmarking
Benchmarking Tools For Single Cell RNA Sequencing Datasets
| add_clustering_annotation | Add Clustering Annotations |
| add_duplicate_cells | Add duplicated Cells |
| add_zero_variance_gene_counts | Add Zero Variance Gene Counts |
| annotate_datasets | Annotate Data sets |
| create_internal_cluster_validation_report | Create Internal Cluster Validation Report |
| create_metamorphic_testing_report | Create Metamorphic Testing Report |
| describe_datasets | Describe Datasets |
| download_data | Downloads the data |
| duplicate_datasets | Duplicate Datasets |
| extract_common_genes | Extract the Common Genes |
| extract_datasets | Extract Datasets |
| filter_data | Filter the a Data List |
| flip_gene_counts | Flips the Gene Counts |
| get_number_clusters | Get the number of clusters |
| get_number_singletons | Get the number of Singletons |
| load_data | Loads the data |
| merge_datasets | Merge the Sparse data sets |
| modify_gene_counts | Modify Gene Counts |
| permute_columns | Permute the columns of a Data List |
| permute_dataset_order | Permute the Order fo the data sets |
| permute_rows | Permute the Rows of a Data List |
| perturb_datasets | Preturb Data sets |
| plot_clusters | Visualization method for the Clustering Methods |
| run_ari | Run ARI |
| run_cca | Run CCA |
| run_cca_integration_workflow | Completes the CCA Workflow |
| run_clustering_workflow | Completes the clustering workflow |
| run_dunn | Run Dunn Index |
| run_fastmnn | Run fastmnn |
| run_fastmnn_integration_workflow | Completes the FastMNN Workflow |
| run_harmony | Run Harmony |
| run_harmony_integration_workflow | Completes the Harmony Workflow |
| run_kmeans_clustering | Run Kmeans |
| run_log | Runs the Log Transformation |
| run_metamorphic_test | Run metamorphic tests |
| run_metamorphic_test_workflow | Completes the Metamorphic Testing workflow |
| run_pca | Run Principle Component Analysis |
| run_sctransform | Run sctransform |
| run_sctransform_integration_workflow | Completes the SCtransform Workflow |
| run_seurat_clustering | Seurat Clustering |
| run_silhouette | Run Silhouette |
| run_tfidf | Runs the tfidf Transformations |
| run_tsne | Run tSNE |
| run_umap | Run UMAP |
| scale_data | Scales the Data |
| select_hvg | Select Highly Variable Genes |
