API for trichelab/velocessor
The world's dumbest single-cell RNA velocity calculator and loader
| Global functions | |
|---|---|
| .addColumn | Source code |
| .addColumns | Source code |
| .addDiffColumns | Source code |
| .add_vpt | Source code |
| .cellrank | Source code |
| .clean_axis | Source code |
| .clust_density | Source code |
| .clust_louvain | Source code |
| .clust_mbkmeans | Source code |
| .collapse_genes | Source code |
| .colnames_are_wells | Source code |
| .colrs_ok | Source code |
| .compute_tpm | Source code |
| .countcells | Source code |
| .doQC | Source code |
| .do_droplet_QC | Source code |
| .down_sample | Source code |
| .extract_columns | Source code |
| .getGTF | Source code |
| .getSampleNames | Source code |
| .get_embedding | Source code |
| .get_genome | Source code |
| .getcells | Source code |
| .import_alevin | Source code |
| .import_kallisto | Source code |
| .import_kallisto_tsv | Source code |
| .keepcombos | Source code |
| .lcs | Source code |
| .lex_to_num | Source code |
| .make_annotations | Source code |
| .make_color_menu | Source code |
| .make_velo_menu | Source code |
| .normit | Source code |
| .nv | Source code |
| .plausible | Source code |
| .popOff | Source code |
| .quickQC | Source code |
| .readFish | Source code |
| .readSparseMat | Source code |
| .recluster | Source code |
| .removeEmptyCells | Source code |
| .renormalize | Source code |
| .rowRanges | Source code |
| .rowRangesFromGtf | Source code |
| .rowRanges_from_gtf | Source code |
| .run_cellrank | Source code |
| .show_infercnv | Source code |
| .split_altExps | Source code |
| .squeeze | Source code |
| .status | Source code |
| .tidy_colnames | Source code |
| .tidy_well_names | Source code |
| .unsqueeze | Source code |
| .velo_ok | Source code |
| .weighted_smooth | Source code |
| .whichcells | Source code |
| GET | Source code |
| GET_MD | Source code |
| GET_RD | Source code |
| SET | Source code |
| SET_MD | Source code |
| SET_RD | Source code |
| add_densmap | Man page Source code |
| add_plate_metrics | Man page Source code |
| add_static_trace | Man page Source code |
| add_tpm | Man page Source code |
| add_umap_embedding | Man page Source code |
| add_velo_trace | Man page Source code |
| adt_seqs_from_hdf5 | Man page Source code |
| adts_from_hdf5 | Man page Source code |
| biotypes | Man page |
| cellrank | Man page |
| cellrank,SingleCellExperiment-method | Man page |
| check_sce | Man page Source code |
| cluster_velo_txis | Man page Source code |
| compute_velocity | Man page Source code |
| dedupe_velo_txis | Man page Source code |
| diff_AB | Man page Source code |
| downsample_txis | Man page Source code |
| drop_doublets | Man page Source code |
| embedded | Man page |
| embedded,SingleCellExperiment-method | Man page |
| embedded<- | Man page |
| embedded<-,SingleCellExperiment-method | Man page |
| fetch_ensembl | Man page Source code |
| find_doublets | Man page Source code |
| find_dupe_txis | Man page Source code |
| find_eligible_cells | Man page Source code |
| fit_mixtures | Man page Source code |
| fix_cells | Man page Source code |
| fix_gencode | Man page Source code |
| fix_rownames | Man page Source code |
| gene_biotype | Man page |
| gene_biotype,SummarizedExperiment-method | Man page |
| gene_biotype<- | Man page |
| gene_biotype<-,SummarizedExperiment-method | Man page |
| get_AB | Man page Source code |
| get_ensembl_genes | Man page Man page Source code |
| get_ensembl_transcripts | Man page Man page Source code |
| get_gencode_ensembl | Man page Source code |
| get_gencode_genes | Man page Source code |
| get_gencode_species | Man page Source code |
| get_gencode_transcripts | Man page Source code |
| get_sample_from_barcode | Man page Source code |
| harmonize_velo_txis | Man page Source code |
| import_droplet_txis | Man page Source code |
| import_kallisto_txis | Man page Source code |
| import_plate_txis | Man page Source code |
| import_velo_txis | Man page Source code |
| infercnv | Man page Source code |
| izar_transform | Man page Source code |
| label_cells | Man page Source code |
| load_mtx | Man page Source code |
| make_plate_plot | Man page Source code |
| make_storm_trimmer | Man page Source code |
| make_tximeta | Man page Source code |
| make_velo_index | Man page Source code |
| merge_sces | Man page Source code |
| nonzero | Man page Source code |
| nz | Man page Source code |
| nz_bycol | Man page Source code |
| nz_byrow | Man page Source code |
| nz_colnames | Man page Source code |
| nz_cols | Man page Source code |
| nz_rownames | Man page Source code |
| nz_rows | Man page Source code |
| plot_ABC | Man page Source code |
| plot_densities | Man page Source code |
| plot_eligible_cells | Man page Source code |
| plot_features | Man page Source code |
| plot_velo | Man page Source code |
| process_velo_txis | Man page Source code |
| project_onto_umap | Man page Source code |
| relevel_sequentially | Man page Source code |
| rescale_dimred | Man page Source code |
| sample_clusters | Man page Source code |
| scVelo | Man page |
| scVelo,SingleCellExperiment-method | Man page |
| scVelo<- | Man page |
| scVelo<-,SingleCellExperiment-method | Man page |
| scdb | Man page Source code |
| spliced | Man page |
| spliced,SingleCellExperiment-method | Man page |
| spliced<- | Man page |
| spliced<-,SingleCellExperiment-method | Man page |
| split_SE | Man page Source code |
| transcript_biotype | Man page |
| transcript_biotype,SummarizedExperiment-method | Man page |
| transcript_biotype<- | Man page |
| transcript_biotype<-,SummarizedExperiment-method | Man page |
| unspliced | Man page |
| unspliced,SingleCellExperiment-method | Man page |
| unspliced<- | Man page |
| unspliced<-,SingleCellExperiment-method | Man page |
| veload | Man page Source code |
| velocity_assays | Man page |
| velocity_metadata | Man page |
