API for jrboyd/seqsetvis
Set Based Visualizations for Next-Gen Sequencing Data
| Global functions | |
|---|---|
| .expand_cigar_dt | Man page Source code |
| .expand_cigar_dt_recursive | Man page Source code |
| .get_file_attribs | Source code |
| .get_unique_names | Source code |
| .rm_dupes | Man page Source code |
| .rm_dupesPE | Man page Source code |
| Bcell_peaks | Man page |
| CTCF_in_10a_bigWig_urls | Man page |
| CTCF_in_10a_data | Man page |
| CTCF_in_10a_narrowPeak_grs | Man page |
| CTCF_in_10a_narrowPeak_urls | Man page |
| CTCF_in_10a_overlaps_gr | Man page |
| CTCF_in_10a_profiles_dt | Man page |
| CTCF_in_10a_profiles_gr | Man page |
| add_cluster_annotation | Man page |
| append_ynorm | Man page Source code |
| applyMovingAverage | Man page Source code |
| applySpline | Man page Source code |
| assemble_heatmap_cluster_bars | Man page |
| calc_norm_factors | Man page Source code |
| centerAtMax | Man page Source code |
| centerFixedSizeGRanges | Man page Source code |
| centerGRangesAtMax | Man page Source code |
| chromHMM_demo_bw_states_gr | Man page |
| chromHMM_demo_chain_url | Man page |
| chromHMM_demo_data | Man page |
| chromHMM_demo_overlaps_gr | Man page |
| chromHMM_demo_segmentation_url | Man page |
| chromHMM_demo_state_colors | Man page |
| chromHMM_demo_state_total_widths | Man page |
| clusteringKmeans | Man page Source code |
| clusteringKmeansNestedHclust | Man page Source code |
| col2hex | Man page Source code |
| collapse_gr | Man page Source code |
| convert_collapsed_coord | Man page Source code |
| copy_clust_info | Man page Source code |
| crossCorrByRle | Man page Source code |
| easyLoad_FUN | Man page Source code |
| easyLoad_IDRmerged | Man page Source code |
| easyLoad_bed | Man page Source code |
| easyLoad_broadPeak | Man page Source code |
| easyLoad_narrowPeak | Man page Source code |
| easyLoad_seacr | Man page Source code |
| expandCigar | Man page Source code |
| fetchBam | Man page Source code |
| fetchBamPE | Source code |
| fetchGRanges_as_coverage | Source code |
| fetchGRanges_by_attrib_var | Source code |
| findMaxPos | Man page Source code |
| fragLen_calcStranded | Man page Source code |
| fragLen_fromMacs2Xls | Man page Source code |
| getReadLength | Man page Source code |
| get_mapped_reads | Man page Source code |
| ggellipse | Man page Source code |
| harmonize_seqlengths | Man page Source code |
| make_clustering_matrix | Man page |
| merge_clusters | Man page Source code |
| movingAverage | Source code |
| prepare_fetch_GRanges | Man page Source code |
| prepare_fetch_GRanges_names | Man page Source code |
| prepare_fetch_GRanges_width | Man page Source code |
| quantileGRangesWidth | Man page Source code |
| reorder_clusters_hclust | Man page Source code |
| reorder_clusters_manual | Man page Source code |
| reorder_clusters_stepdown | Man page Source code |
| reverse_clusters | Man page Source code |
| safeBrew | Man page Source code |
| seqsetvis | Man page |
| seqsetvis-package | Man page |
| set_list2memb | Man page Source code |
| shift_anchor | Man page Source code |
| split_cluster | Man page Source code |
| ssvConsensusIntervalSets | Man page Source code |
| ssvFactorizeMembTable | Man page Source code |
| ssvFeatureBars | Man page Source code |
| ssvFeatureBinaryHeatmap | Man page Source code |
| ssvFeatureEuler | Man page Source code |
| ssvFeaturePie | Man page Source code |
| ssvFeatureUpset | Man page Source code |
| ssvFeatureVenn | Man page Source code |
| ssvFetchBam | Man page Source code |
| ssvFetchBam.single | Man page Source code |
| ssvFetchBamPE | Man page Source code |
| ssvFetchBamPE.single | Man page Source code |
| ssvFetchBigwig | Man page Source code |
| ssvFetchBigwig.single | Man page Source code |
| ssvFetchGRanges | Man page Source code |
| ssvFetchSignal | Man page Source code |
| ssvMakeMembTable | Man page |
| ssvMakeMembTable,DataFrame-method | Man page |
| ssvMakeMembTable,GRanges-method | Man page |
| ssvMakeMembTable,GRangesList-method | Man page |
| ssvMakeMembTable,data.frame-method | Man page |
| ssvMakeMembTable,list-method | Man page |
| ssvMakeMembTable,matrix-method | Man page |
| ssvOverlapIntervalSets | Man page Source code |
| ssvSignalBandedQuantiles | Man page Source code |
| ssvSignalClustering | Man page Source code |
| ssvSignalHeatmap | Man page |
| ssvSignalHeatmap.ClusterBars | Man page |
| ssvSignalLineplot | Man page |
| ssvSignalLineplotAgg | Man page |
| ssvSignalScatterplot | Man page |
| ssv_mclapply | Man page Source code |
| test_peaks | Man page |
| viewGRangesWinSample_dt | Man page Source code |
| viewGRangesWinSummary_dt | Man page |
| within_clust_sort | Man page Source code |
| within_clust_sort.mat_dt | Source code |
