| ATACtion |
Man page
|
| GI.to.peakConnectivity.mat |
Source code
|
| GenomicInteractions.to.cicero |
Source code
|
| add.binarized.counts |
Source code
|
| add_motif_matched_to_ATACtion |
Source code
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| add_physical_peak_gene_interactions_to_ATACtion |
Source code
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| add_proximal_peak_gene_interactions_to_ATACtion |
Source code
|
| annotate.GR.peaks |
Source code
|
| annotate_ATACTion_peaks |
Source code
|
| annotate_ATACtion_cells_using_markers |
Source code
|
| cicero.to.GenomicInteractions |
Source code
|
| compute_ATAC_archetype_to_ATAC_archetype_alignment |
Source code
|
| compute_ATAC_archetype_to_RNA_archetype_alignment |
Source code
|
| compute_ATAC_cell_to_ATAC_cell_alignment |
Source code
|
| compute_ATAC_cell_to_RNA_cell_alignment |
Source code
|
| compute_ATACtion_archSE |
Source code
|
| compute_GRList_enrichment_from_ATACtion |
Source code
|
| compute_RNA_archetype_to_ATAC_archetype_alignment |
Source code
|
| compute_RNA_cell_to_ATAC_cell_alignment |
Source code
|
| compute_TF_enrichment_from_ATACtion |
Source code
|
| compute_bulkATAC_to_ATAC_archetype_alignment |
Source code
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| compute_bulkRNA_to_ATAC_archetype_alignment |
Source code
|
| compute_cicero_ccans |
Source code
|
| compute_cicero_gene_expression |
Source code
|
| compute_gene_enrichment_from_ATACtion |
Source code
|
| compute_geneset_enrichment_from_ATACtion |
Source code
|
| conn.to.peakConnectivity.mat |
Source code
|
| export_ATACtion_to_SnapATAC |
Source code
|
| export_ATACtion_to_cisTopic |
Source code
|
| extend.cisConnectome.usingConns |
Source code
|
| extend.cisConnectome.usingGI |
Source code
|
| extract_SnapATAC_reduction |
Source code
|
| extract_cisTopic_factors |
Source code
|
| get_ATACtion_enrichment |
Source code
|
| import_ATACtion_from_10X |
Source code
|
| import_ATACtion_from_ArchR |
Source code
|
| import_ATACtion_from_SnapATAC |
Source code
|
| impute_TF_activity_using_ATACtion |
Source code
|
| impute_gene_expression_using_ATACtion |
Source code
|
| impute_genome_wide_activity |
Source code
|
| impute_genomewide_ATAC_signals |
Source code
|
| insertionProfileSingles |
Source code
|
| insertionProfileSingles_helper |
Source code
|
| is.GR |
Source code
|
| liftOverGR |
Source code
Source code
|
| liftOverGR_list |
Source code
Source code
|
| load_gwascat_GR |
Source code
|
| plot_ATACtion_TF_view |
Source code
|
| plot_ATACtion_gene_view |
Source code
|
| plot_archetype_tracks |
Source code
|
| project_ATACtion_enrichment_to_cells |
Source code
|
| reduceChromatinAccessibility |
Source code
|
| reduce_peaks_using_ACTION |
Source code
|
| reduce_peaks_using_LSACTION |
Source code
|
| reduce_peaks_using_LSI |
Source code
|
| reduce_peaks_using_chromVAR |
Source code
|
| run_ATACtion |
Source code
|
| run_ATACtion_cicerify |
Source code
|
| run_SnapATAC |
Source code
|
| run_cisTopic |
Source code
|
| tabulate2dCpp |
Source code
|
| visualize_marker_genes_over_ATACtion |
Source code
|
