API for jiang-junyao/IReNA
IReNA
| Global functions | |
|---|---|
| Add_size_of_motif | Source code |
| CalCuts | Source code |
| Cal_Footprints_FOS | Source code |
| Cal_Footprints_FOS2 | Source code |
| ChscRNA_genes | Man page |
| Combine_Footprints_FOS | Source code |
| Converse_GeneIDSymbol | Man page Source code |
| End | Source code |
| Filter_Footprints | Source code |
| FootprintCuts | Source code |
| Footprints_FOS | Man page Source code |
| Get_p2g_fun | Man page Source code |
| HsscRNA_genes | Man page |
| Merge_TFs_genes | Source code |
| Merge_same_pairs | Source code |
| MmscRNA_genes | Man page |
| Must_to_GR | Source code |
| Seqnames | Source code |
| Start | Source code |
| Str_to_GR | Source code |
| Tranfac201803_Ch_MotifTFsF | Man page |
| Tranfac201803_Hs_MotifTFsF | Man page |
| Tranfac201803_Mm_MotifTFsF | Man page |
| Tranfac201803_Zf_MotifTFsF | Man page |
| Trans_WigToMultirows | Source code |
| Trans_WigToMultirows2 | Source code |
| ZfscRNA_genes | Man page |
| add_ENSID | Man page Source code |
| add_pseudotime | Man page Source code |
| add_regulation_type | Man page Source code |
| cal_footprint_cuts | Man page Source code |
| clustering_Kmeans | Man page Source code |
| combine_footprints | Man page Source code |
| diff_peaks | Man page Source code |
| diffgenetest_pseudotime | Source code |
| edge_handle | Source code |
| enrich_module | Man page Source code |
| extract_expressed_TFs | Man page Source code |
| extract_genes | Source code |
| filter_ATAC | Man page Source code |
| filter_expression_profile | Man page Source code |
| filter_original_regulation | Man page Source code |
| filter_regulation_Rcis | Man page Source code |
| filter_regulation_fimo | Man page Source code |
| find_motifs | Man page Source code |
| find_motifs_targetgenes | Man page Source code |
| generate_fimo_regulation | Man page Source code |
| generate_peak_gtf | Man page Source code |
| generate_scATAC_Candid | Man page Source code |
| get_Enriched_TFs | Source code |
| get_SmoothByBin_PseudotimeExp | Man page Source code |
| get_bed | Man page Source code |
| get_cor | Man page Source code |
| get_genes | Source code |
| get_merged_fasta | Man page Source code |
| get_partial_regulations | Source code |
| get_potential_regulation | Source code |
| get_potential_regulation2 | Source code |
| get_pseudotime | Man page Source code |
| get_regulation_of_TFs_to_modules | Source code |
| get_related_genes | Man page Source code |
| get_related_peaks | Man page Source code |
| get_tss_region | Man page Source code |
| getfasta | Source code |
| getfasta2 | Source code |
| identify_region_tfs | Man page Source code |
| initiate_cy | Man page Source code |
| irena_step1 | Man page Source code |
| irena_step2 | Man page Source code |
| load_counts | Man page Source code |
| make_tf_target | Source code |
| merge_Module_Regulations | Source code |
| merge_extent_footprints | Source code |
| merge_extent_footprints2 | Source code |
| merge_footprints | Source code |
| merge_group | Source code Source code |
| merge_sort_count | Man page Source code |
| motifs_select | Man page Source code |
| motifs_select2 | Source code |
| network_Rcis | Source code |
| network_analysis | Man page Source code |
| output_grn | Man page Source code |
| overlap_footprints_peaks | Man page Source code |
| overlap_peak_motif | Source code |
| paste_gene | Source code |
| plot_intramodular_network | Man page Source code |
| plot_kmeans_pheatmap | Man page Source code |
| plot_tf_network | Man page Source code |
| smoothByBin | Source code |
| smoothByState | Source code |
| sort_TFs_degree | Man page Source code |
| sparse.cor | Source code |
| split_dataframe | Source code |
| split_motif | Source code |
| validInput | Source code |
