API for blaserlab/blaseRtools
R Tools for Blaser Lab Data Analysis
| Global functions | |
|---|---|
| $,ImageCatalog-method | Man page |
| %notin% | Man page |
| .SummarizedHeatmap | Man page |
| Ape | Man page |
| Ape-class | Man page |
| Ape.DNA | Man page |
| Ape.fasta | Man page |
| Ape.fimo | Man page |
| Ape.granges | Man page |
| Ape.save | Man page |
| Ape.setFeatures | Man page |
| AssociatedDimReducs | Source code |
| COMMENTS | Man page |
| CheckPackage | Source code |
| DefaultDimReduc | Source code |
| FEATURES | Man page |
| Image | Man page |
| Image-class | Man page |
| ImageCatalog | Man page |
| ImageCatalog-class | Man page |
| ImageCatalog.add | Man page |
| ImageCatalog.as_tibble | Man page |
| ImageCatalog.delete | Man page |
| ImageCatalog.write | Man page |
| Image_ | Man page |
| Image_-class | Man page |
| IsMatrixEmpty | Source code |
| LOCUS | Man page |
| LearnGraph | Man page Source code |
| SeuratWrappers-package | Man page |
| SummarizedHeatmap | Man page Source code |
| SummarizedHeatmap-class | Man page |
| Trace | Man page |
| Trace-class | Man page |
| Trace.data | Man page |
| Trace.gene_model | Man page |
| Trace.links | Man page |
| Trace.peaks | Man page |
| Trace.plot_range | Man page |
| Trace.setData | Man page |
| Trace.setLinks | Man page |
| Trace.setRange | Man page |
| Trace.setpeaks | Man page |
| [,ImageCatalog,ANY,ANY,ANY-method | Man page |
| [[,ImageCatalog,ANY,ANY-method | Man page |
| `%iff%` | Source code |
| `%||%` | Source code |
| add_cds_factor_columns | Man page Source code |
| aggregate.Matrix | Man page Source code |
| aggregate2.Matrix | Source code |
| areColors | Source code Source code |
| as.CellDataSet | Man page |
| as.Seurat.cell_data_set | Man page Source code |
| as.cell_data_set | Man page Source code |
| as.cell_data_set.Seurat | Man page Source code |
| bb_aggregate | Man page |
| bb_align | Man page Source code |
| bb_annotate_npc | Man page Source code |
| bb_blind_images | Man page Source code |
| bb_buff_granges | Man page Source code |
| bb_cds_anno | Man page |
| bb_cds_heatmap | Man page Source code |
| bb_cellchat | Man page Source code |
| bb_cellchat_heatmap | Man page Source code |
| bb_cellmeta | Man page Source code |
| bb_cite_umap | Man page Source code |
| bb_cluster_representation | Man page Source code |
| bb_cluster_representation2 | Man page Source code |
| bb_daseq | Man page Source code |
| bb_doubletfinder | Man page Source code |
| bb_extract_msig | Man page Source code |
| bb_fix_file_path | Man page Source code |
| bb_fragment_replacement | Man page Source code |
| bb_gene_dotplot | Man page Source code |
| bb_gene_modules | Man page Source code |
| bb_gene_pseudotime | Man page |
| bb_gene_umap | Man page |
| bb_gene_violinplot | Man page Source code |
| bb_genebubbles | Man page Source code |
| bb_goenrichment | Man page Source code |
| bb_goscatter | Man page |
| bb_gosummary | Man page Source code |
| bb_import_bw | Man page Source code |
| bb_import_seacr_peaks | Man page Source code |
| bb_load_tenx_h5 | Man page |
| bb_load_tenx_targz | Man page |
| bb_loupeR | Man page Source code |
| bb_makeTrace | Man page Source code |
| bb_make_ape_genomic | Man page Source code |
| bb_make_ape_transcript | Man page Source code |
| bb_merge_narrowpeaks | Man page Source code |
| bb_metafeature | Man page Source code |
| bb_monocle_ | Man page Source code |
| bb_monocle_anno | Man page Source code |
| bb_monocle_project | Man page Source code |
| bb_monocle_regression | Man page Source code |
| bb_monocle_regression_better | Man page Source code |
| bb_parseape | Man page Source code |
| bb_plot_genes_in_pseudotime | Man page Source code |
| bb_plot_heatmap_colData | Man page Source code |
| bb_plot_heatmap_colDendro | Man page Source code |
| bb_plot_heatmap_colHighlight | Man page Source code |
| bb_plot_heatmap_main | Man page Source code |
| bb_plot_heatmap_rowData | Man page Source code |
| bb_plot_heatmap_rowDendro | Man page Source code |
| bb_plot_heatmap_rowHighlight | Man page Source code |
| bb_plot_rowData_col | Man page Source code |
| bb_plot_trace_axis | Man page Source code |
| bb_plot_trace_data | Man page Source code |
| bb_plot_trace_links | Man page Source code |
| bb_plot_trace_model | Man page Source code |
| bb_plot_trace_peaks | Man page Source code |
| bb_plotfootprint | Man page Source code |
| bb_print_full_stats | Man page Source code |
| bb_promoter_overlap | Man page Source code |
| bb_pseudobulk_mf | Man page Source code |
| bb_pseudocells | Man page Source code |
| bb_pseudotime | Man page Source code |
| bb_qc | Man page Source code |
| bb_read_bam | Man page Source code |
| bb_read_narrowpeak | Man page Source code |
| bb_rejoin | Man page Source code |
| bb_remove_dupes | Man page Source code |
| bb_rowmeta | Man page Source code |
| bb_seurat_anno | Man page Source code |
| bb_split_atac | Man page |
| bb_split_citeseq | Man page Source code |
| bb_tbl_to_coldata | Man page |
| bb_tbl_to_matrix | Man page Source code |
| bb_tbl_to_rowdata | Man page |
| bb_triplecluster | Man page Source code |
| bb_unblind_images | Man page Source code |
| bb_var_umap | Man page Source code |
| bicluster_bubbles | Source code |
| blaseRtools | Man page |
| blaseRtools-package | Man page |
| branch_nodes | Source code |
| buff_granges | Source code |
| cds_stop | Source code |
| cds_warn | Source code |
| dMcast | Man page Source code |
| data_median_se | Man page Source code |
| data_summary_mean_sd | Man page Source code |
| data_summary_mean_se | Man page Source code |
| data_summary_median_iqr | Man page Source code |
| data_summary_median_mad | Man page Source code |
| dnastring_to_origin | Source code |
| doublet_finder | Source code |
| file_path | Man page |
| file_path<- | Man page |
| fill_gaps_with_tiles | Source code |
| filter | Man page |
| filter<- | Man page |
| filter_cds | Man page Source code |
| formatter1000 | Source code |
| genetics | Man page |
| genetics<- | Man page |
| geom_split_violin | Man page Source code |
| get_cds_umap_dims | Source code |
| get_density | Source code |
| get_earliest_principal_node | Source code |
| get_edge_df | Source code |
| get_gene_ids | Source code |
| get_hexcount | Source code |
| get_ica_space_df | Source code |
| get_sequence | Source code |
| get_seurat_clr | Source code |
| get_seurat_umap_dims | Source code |
| get_transcript_genename | Source code |
| granges_to_features | Man page Source code |
| join.Matrix | Man page |
| mag | Man page |
| mag<- | Man page |
| make_comment_string | Source code |
| make_grange | Source code |
| make_locus_string | Source code |
| make_pp_labels | Source code |
| make_root_node_labels | Source code |
| make_trajectory_graph | Source code |
| make_transcript_comment | Source code |
| merge.Matrix | Man page Source code |
| microscope | Man page |
| microscope<- | Man page |
| normalize_batch | Man page Source code |
| note | Man page |
| note<- | Man page |
| obj_stop | Source code |
| parse_query | Source code |
| rBind.fill | Man page Source code |
| rBind.fill.internal | Source code |
| root_nodes | Source code |
| se | Man page Source code |
| select_the_transcripts | Source code |
| selector | Source code |
| set_range | Source code |
| show,Ape-method | Man page |
| show,ImageCatalog-method | Man page |
| show,Image_-method | Man page |
| show,Trace-method | Man page |
| species | Man page |
| species<- | Man page |
| stage | Man page |
| stage<- | Man page |
| theme_dendro | Source code |
| theme_hm_colData_left | Source code |
| theme_hm_colData_top | Source code |
| theme_hm_main | Source code |
| theme_hm_rowData_left | Source code |
| theme_hm_rowData_top | Source code |
| theme_min_y | Source code |
| theme_no_x | Source code |
| theme_no_y | Source code |
| treatment | Man page |
| treatment<- | Man page |
| trim_and_drop_levels | Source code |
| use | Man page |
| use<- | Man page |
