API for FrietzeLabUVM/ssvQC
QC for enrichment based NGS
| Global functions | |
|---|---|
| .check_QcConfigFeatures | Source code |
| .enforce_file_var | Source code |
| .enforce_found_order | Source code |
| .enforce_name_var | Source code |
| .get_fetch_fun | Source code |
| .get_files | Source code |
| .make_query_signal_config | Source code |
| .onAttach | Source code |
| .parse_config_body | Source code |
| .parse_config_header | Man page Source code |
| .plotFeatures | Source code |
| .plot_QcConfig | Source code |
| .plot_ssvQC | Source code |
| .prepCapValue | Source code |
| .prepFeatures | Man page Source code |
| .prepFragLens | Source code |
| .prepSignal | Source code |
| .prep_features_config | Source code |
| .prep_signal_config | Source code |
| .process_assessment | Source code |
| .process_features | Source code |
| .process_overlaps | Source code |
| .remove_FRIP_ids | Source code |
| .remove_SCC_ids | Source code |
| .remove_signal_ids | Source code |
| .save_config | Man page Source code |
| .show_QcConfig | Man page Source code |
| .show_ssvQC | Man page Source code |
| .ssvQC.plotMappedReads | Source code |
| .test_suff | Source code |
| ClusteredSignal | Man page Source code |
| ClusteredSignal-class | Man page |
| ClusteredSignal.fromConfig | Man page Source code |
| ClusteredSignal.fromConfig.run_by_match | Source code |
| ClusteredSignal.null | Man page Source code |
| QcColorMapping | Man page |
| QcColorMapping,QcConfig-method | Man page |
| QcConfig-class | Man page |
| QcConfig.files | Man page Source code |
| QcConfig.save_config | Man page Source code |
| QcConfigFeatures | Man page Source code |
| QcConfigFeatures-class | Man page |
| QcConfigFeatures.GRanges | Man page Source code |
| QcConfigFeatures.files | Man page Source code |
| QcConfigFeatures.null | Man page Source code |
| QcConfigFeatures.parse | Man page Source code |
| QcConfigFeatures.save_config | Man page Source code |
| QcConfigSignal | Man page Source code |
| QcConfigSignal-class | Man page |
| QcConfigSignal.files | Man page Source code |
| QcConfigSignal.null | Man page Source code |
| QcConfigSignal.parse | Man page Source code |
| QcConfigSignal.save_config | Man page Source code |
| QcPlot-class | Man page |
| QcScaleColor | Man page |
| QcScaleColor,QcConfig-method | Man page |
| QcScaleFill | Man page |
| QcScaleFill,QcConfig-method | Man page |
| bfcif | Man page Source code |
| check_QcConfigSignal | Source code |
| crossCorrByRle | Source code |
| dbl_extract | Source code |
| dbl_lapply | Source code |
| dbl_names | Source code |
| digest_args | Man page Source code |
| feature_name2signal_name | Source code |
| fetch_signal_at_features | Man page Source code |
| gather_metrics | Source code |
| getReadLength | Source code |
| get_args | Man page Source code |
| get_default_signal_var | Source code |
| get_feature_file_load_function | Man page Source code |
| get_fetch_fun | Source code |
| get_group_colors | Source code |
| get_mapped_reads | Man page Source code |
| guess_feature_file_format | Man page Source code |
| guess_read_mode | Man page Source code |
| harmonize_seqlengths | Man page Source code |
| is_feature_file | Source code |
| is_signal_file | Source code |
| make_anno_dt | Man page Source code |
| make_anno_grs | Man page Source code |
| make_assign_dt | Man page Source code |
| make_centered_query_gr | Man page Source code |
| make_dt | Man page Source code |
| make_feature_as_signal_dt | Man page Source code |
| make_feature_overlap_signal_profiles | Man page Source code |
| make_fq_dt | Man page Source code |
| make_frip_dt | Man page Source code |
| make_frip_dt.run_by_match | Source code |
| make_peak_dt | Man page Source code |
| make_scc_dt | Man page Source code |
| make_scc_dt.run_by_match | Source code |
| make_scc_dt.single | Man page Source code |
| new_cache | Source code |
| parse_fetch_options | Man page Source code |
| plot_anno_overlap | Man page Source code |
| plot_feature_comparison | Man page Source code |
| plot_feature_overlap_signal_profiles | Man page Source code |
| plot_fq_dt | Man page Source code |
| plot_frip_dt | Man page Source code |
| plot_scc_dt | Man page Source code |
| plot_signals | Man page Source code |
| reference_uses_same_scale | Source code |
| run_by_match | Source code |
| sampleCap | Man page Source code |
| show,QcConfig-method | Man page |
| show,ssvQC-method | Man page |
| signal_name2feature_name | Source code |
| single_extract | Source code |
| ssvQC | Man page Source code |
| ssvQC.complete-class | Man page |
| ssvQC.complete.bw-class | Man page |
| ssvQC.featureOnly-class | Man page |
| ssvQC.plotCorrelation | Man page |
| ssvQC.plotFRIP | Man page |
| ssvQC.plotFeatures | Man page |
| ssvQC.plotMappedReads | Man page |
| ssvQC.plotSCC | Man page |
| ssvQC.plotSignal | Man page |
| ssvQC.prepCapValue | Man page |
| ssvQC.prepCorrelation | Man page |
| ssvQC.prepFRIP | Man page |
| ssvQC.prepFeatures | Man page |
| ssvQC.prepFetch | Man page |
| ssvQC.prepFragLens | Man page |
| ssvQC.prepMappedReads | Man page |
| ssvQC.prepSCC | Man page |
| ssvQC.prepSignal | Man page |
| ssvQC.referenceUsesSameScale | Man page |
| ssvQC.removeClusters | Man page Source code |
| ssvQC.removeFeatures | Man page Source code |
| ssvQC.runAll | Man page |
| ssvQC.save_config | Man page Source code |
| ssvQC.selectClusters | Man page Source code |
| ssvQC.selectFeatures | Man page Source code |
| ssvQC.signalOnly-class | Man page |
| ssvQC.signalOnly.bw-class | Man page |
| ssv_mclapply | Man page Source code |
| sync_height | Man page Source code |
| sync_width | Man page Source code |
| write_bed_frip | Man page Source code |
| write_bed_overlaps | Man page Source code |
| write_ssvQC.correlation | Man page Source code |
| write_ssvQC.per_peak | Man page Source code |
| write_ssvQC.summary | Man page Source code |
