API for AllenInstitute/lowcat
Low Coverage Accessibility and Transcriptomics
| Global functions | |
|---|---|
| GRanges_to_bed | Man page Source code |
| GRanges_to_ucsc_loc | Man page Source code |
| all_column_correlation | Man page Source code |
| balance_fragment_clusters | Man page Source code |
| bam_to_fragment_list | Man page Source code |
| bed_to_GRanges | Man page Source code |
| bed_to_ucsc_loc | Man page Source code |
| build_pile_heatmap | Man page Source code |
| build_pile_plot | Man page Source code |
| calculateBHSUM | Source code |
| calculateBinomTests | Source code |
| calculateCounts | Source code |
| calculateHyperTests | Source code |
| calculateRPKMs | Source code |
| cat_update | Man page Source code |
| clusterApplyLB_chunks | Man page Source code |
| collapse_fragment_list | Man page Source code |
| combine_group_GRanges | Man page Source code |
| compare_fragment_lists | Man page Source code |
| convert_fragment_list | Man page Source code |
| count_fragment_overlaps | Man page Source code |
| downsample_fragments | Man page Source code |
| expand_fragments | Man page Source code |
| filter_fragments | Man page Source code |
| fragments_to_windows | Man page Source code |
| get_gene_bodies | Man page Source code |
| get_great_regions | Man page Source code |
| get_tss_regions | Man page Source code |
| hello | Man page |
| install_bioc_deps | Source code |
| makePeakList | Source code |
| matrix_var_filter | Man page Source code |
| max_column_correlation | Man page Source code |
| merge_bam_files | Man page Source code |
| overlap_jaccard_df | Man page Source code |
| overlap_jaccard_df_fun | Man page Source code |
| overlap_jaccard_mat | Man page Source code |
| overlap_jaccard_mat_fun | Man page Source code |
| pe_to_frag | Man page Source code |
| pe_to_frag_parallel | Man page Source code |
| percent_display | Man page Source code |
| pileup_gr_list | Man page Source code |
| plotBinarized | Source code |
| plotBinomTests | Source code |
| plotHyperTests | Source code |
| plotRPKMs | Source code |
| readCounts | Source code |
| read_multiplexed_paired_bam | Man page Source code |
| region_fragment_count | Man page Source code |
| region_fragment_count_clusters | Source code |
| region_fragment_count_neighbors | Source code |
| res_to_distance_matrix | Man page Source code |
| run_fragment_overlap_jaccard_parallel | Man page |
| run_fragment_overlap_jaccard_parallel_full | Man page |
| run_pe_to_frag_parallel | Man page Source code |
| run_se_to_cuts_parallel | Man page Source code |
| run_window_overlap_jaccard_parallel | Man page |
| se_to_cuts | Man page Source code |
| se_to_cuts_parallel | Man page Source code |
| subsampleRPKMs | Source code |
| time_display | Man page Source code |
| ucsc_loc_to_GRanges | Man page Source code |
| ucsc_loc_to_bed | Man page Source code |
| window_jaccard_df | Man page Source code |
| window_jaccard_df_fun | Man page Source code |
