Epigenetic and gene transcription data normalization and integration with mixture models

bayesMixModel | Fits a Bayesian mixture model using Markov Chain Monte Carlo... |

calculateCrossCorrelation | Calculate the cross correlation for a given GRanges object. |

ChIPseqSet-class | Class '"ChIPseqSet"' |

eSet | Example gene expression data set. |

fpkm | Example RNA-seq data set. |

getAlignmentQuality | Calculation of basic alignments statistics |

integrateData | Calculates a normalized correlation score from ChIP-seq and... |

mappedReads | Mapped reads obtained from a anti-histone ChIP-seq... |

matchProbeToPromoter | A function assigning promoter regions to given probe IDs. |

MixModelBayes-class | Class '"MixModelBayes"' |

MixModel-class | Class '"MixModel"' |

MixModelML-class | Class '"MixModelML"' |

MixtureComponent-class | Class '"MixtureComponent"' |

mlMixModel | Fits a mixture model using the maximum likelihood principle. |

normalize | Normalization of ChIP-seq and other count data |

normalizeChIP | Normalization of ChIP-seq count data. (deprecated) |

plotChains | Produces trace plots for a Bayesian mixture model |

plotClassification | Plot classification obtained from a mixture model. |

plotComponents | Plots the mixture density together with the densities of all... |

summarizeReads | Count reads lying within given regions. |

transToTSS | A data frame with Ensemble transcript IDs and transcriptional... |

Embedding an R snippet on your website

Add the following code to your website.

For more information on customizing the embed code, read Embedding Snippets.