API for carmencita/CHIC
Quality Control Pipeline for ChIP-Seq Data
| Global functions | |
|---|---|
| chicWrapper | Man page Source code |
| createMetageneProfile | Man page Source code |
| downsample_ChIPpeaks | Man page Source code |
| f_annotationCheck | Source code |
| f_annotationLoad | Source code |
| f_checkOfChrNames | Source code |
| f_chromInfoLoad | Source code |
| f_clearChromStructure | Source code |
| f_converNarrowPeakFormat | Source code |
| f_convertFormatBroadPeak | Source code |
| f_convertframe | Source code |
| f_feature.bin.averages | Source code |
| f_fingerPrintPlot | Source code |
| f_getBindingClass | Source code |
| f_getPredictionModel | Source code |
| f_loadDataCompendium | Source code |
| f_makeGRangesObject | Source code |
| f_maximaAucfunction | Source code |
| f_maximaAucfunctionNorm | Source code |
| f_metaGeneDefinition | Source code |
| f_one.point.scaling | Source code |
| f_plotProfiles | Source code |
| f_plotValueDistribution | Source code |
| f_prepareData | Source code |
| f_qflag | Source code |
| f_read.bam.tags | Source code |
| f_readFile | Source code |
| f_reduceOverlappingRegions | Source code |
| f_removeLocalTagAnomalies | Source code |
| f_shortenFrame | Source code |
| f_sortAndBinning | Source code |
| f_spotfunction | Source code |
| f_spotfunctionNorm | Source code |
| f_t.get.gene.av.density | Source code |
| f_t.get.gene.av.density_TES | Source code |
| f_t.get.gene.av.density_TSS | Source code |
| f_tagDensity | Source code |
| f_two.point.scaling | Source code |
| f_variabilityValues | Source code |
| f_variabilityValuesNorm | Source code |
| f_write.probe.wig | Source code |
| getCrossCorrelationScores | Man page Source code |
| getPeakCallingScores | Man page Source code |
| listAvailableElements | Man page Source code |
| listDatasets | Man page Source code |
| listMetrics | Man page Source code |
| masked_getGeneAvDensity_TES_TSS | Source code |
| masked_t.get.gene.av.density | Source code |
| metagenePlotsForComparison | Man page Source code |
| plotReferenceDistribution | Man page Source code |
| predictionScore | Man page Source code |
| qualityScores_EM | Man page Source code |
| qualityScores_GM | Man page Source code |
| qualityScores_LM | Man page Source code |
| qualityScores_LMgenebody | Man page Source code |
| readBamFile | Man page Source code |
| removeLocalTagAnomalies | Man page Source code |
| tagDensity | Man page Source code |
