Man pages for dbrookeUAB/dbsinglecell
Dewey Brooke's Single-Cell Toolkit
| add_seurat_embedding | Easily add new embeddings to Seurat Object |
| cellphonedb_summary | CellPhoneDB Summary File |
| create_seurat | Simple method for creating Seurat Objects |
| db_count_genes | Quality Control |
| db_count_reads | Quality Control |
| db_counts | Create Counts objet |
| db_mtx_remove_empty | Remove empty columns from sparse matrix |
| db_qc | Add QC metrics to Seurat Object |
| db_qc_cell | Quality Control |
| db_read10x | Fast Import of 10X Data |
| db_read_alevin | Read Count data from Salmon Alevin |
| db_read_mtx | Import '.mtx' files |
| db_singlecell-package | A short title line describing what the package does |
| db_write10X | Write 10X Files from Sparse Matrix |
| dot-onLoad | onLoad |
| flatMatrix_2_10x | Convert a flat text file into a 10X-formated folder |
| HDBSCAN | Hierarchical Density-Based Spatial Clustering of Applications... |
| HDBSCAN.default | Hierarchical Density-Based Spatial Clustering of Applications... |
| HDBSCAN.matrix | Hierarchical Density-Based Spatial Clustering of Applications... |
| HDBSCAN.Seurat | Hierarchical Density-Based Spatial Clustering of Applications... |
| import_cpdb_results | Simplified importing CellphoneDB Files |
| install_python_packages | Install python packages to use 'HDBSCAN', 'umap-learn', and... |
| message_append | Internal Function Messages |
| message_section | Internal Function Messages |
| message_task | Internal Function Messages |
| NewMeta | Easy Add Meta data to Seurat Object |
| organize_10x | Reorganize another person's mess into a usable 10X dataset |
| PaCMAP | Pairwise Controlled Manifold Approximation (R wrapper) |
| PaCMAP.default | Pairwise Controlled Manifold Approximation (R wrapper) |
| PaCMAP.matrix | Pairwise Controlled Manifold Approximation (R wrapper) |
| PaCMAP.Seurat | Pairwise Controlled Manifold Approximation (R wrapper) |
| pal_ggplot | UMAP Palette using ggplot2 colors |
| pal_hcl | UMAP Palette using HCL presets |
| pal_hue | UMAP Palette using soft hues |
| pal_rainbow | UMAP palette using rainbow colors |
| pre_processing | Seurat Preprocessing |
| print.db_sce | |
| rcpp_hello_world | Simple function using Rcpp |
| show.db_sce | Show |
| sparse2DT | Convert a sparse matrix to a data.table |
| sparse2DT.Seurat | Convert a sparse matrix to a data.table |
| umapl | umap-learn (python implementation of umap) |
| umapl.matrix | umap-learn (python implementation of umap) |
| umapl.Seurat | umap-learn (python implementation of umap) |
| uwot | UWOT-UAMP: multithreading capable |
| uwot.matrix | UWOT-UAMP: multithreading capable |
| uwot.Seurat | UWOT-UAMP: multithreading capable |
