Statistical tools for the analysis of ChIP-seq data

ChIPseqScore | Calculate read-enrichment scores for each nucleotide position |

CSAR-package | Statistical tools for the analysis of ChIP-seq data |

distance2Genes | Calculate relative positions of read-enriched regions... |

genesWithPeaks | Provide table of genes with read-enriched regions, and their... |

getPermutatedWinScores | Obtain the read-enrichment score distribution under the null... |

getThreshold | Calculate the threshold value corresponding to control FDR at... |

loadMappedReads | Load mapped reads |

mappedReads2Nhits | Calculate number of overlapped extended reads per nucleotide... |

permutatedWinScores | Calculate scores for permutated read-enriched regions |

sampleSEP3_test | Partial dataset of a ChIP-seq experiment |

score2wig | Save the read-enrichment scores at each nucleotide position... |

sigWin | Calculate regions of read-enrichment |

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