Man pages for dongjunchung/mosaics
MOSAiCS (MOdel-based one and two Sample Analysis and Inference for ChIP-Seq)
| adjustBoundary | Adjust boundaries of peak regions |
| BinData-class | Class "BinData" |
| constructBins | Construct bin-level ChIP-sep data from an aligned read file |
| estimates | Extract estimates of the fitted MOSAiCS model |
| export | Export peak calling results to text files |
| extractReads | Load read-level data and extract reads corresponding to each... |
| findSummit | Find a summit for each peak region |
| fllterPeak | Filter out potentially false positive peaks |
| generateWig | Construct wiggle files from an aligned ChIP-sep read file |
| mosaicsFit | Fit MOSAiCS model |
| MosaicsFit-class | Class "MosaicsFit" |
| MosaicsFitEst-class | Class "MosaicsFitEst" |
| mosaicsFitHMM | Fit MOSAiCS-HMM model |
| MosaicsFitParam-class | Class "MosaicsFitParam" |
| MosaicsHMM-class | Class "MosaicsHMM" |
| mosaics-internal | Internal mosaics objects |
| mosaics-package | MOSAiCS (MOdel-based one and two Sample Analysis and... |
| mosaicsPeak | Call peaks using fitted MOSAiCS model |
| MosaicsPeak-class | Class "MosaicsPeak" |
| mosaicsPeakHMM | Call broad peaks using fitted MOSAiCS-HMM model |
| MosaicsPeakParam-class | Class "MosaicsPeakParam" |
| mosaicsRunAll | Analyze ChIP-seq data using the MOSAiCS framework |
| readBins | Import bin-level ChIP-sep data |
| TagData-class | Class "TagData" |
