RNAseq analysis pipeline for UMD CBCB collaborators with batch effect assessment and correction

batchSEQ | a pipeline for batch correction and mean-variance function... |

cbcbSEQ | hpgltools: a suite of tools to make our analyses easier |

combatMod | Call ComBat function with minor adjustments |

filterCounts | Filter low expression genes, using independent filtering... |

log2CPM | Compute log2(quantile counts per mil reads) and library size... |

makeSVD | Compute singular value decomposition |

pcRes | Compute variance of each principal component and how they... |

plotPC | Plot first 2 principal components |

qNorm | Quantile transform counts. |

voomMod | Call modified voom on ComBatLoc adjusted data. |

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