Wrapper for several R packages and scripts to automate RNA-seq analysis

calcBasicDE | Calculate basics differential expression between pairs of... |

calcCombVals | Calculate group values from RNAseq data |

calcHornMatrix | Calculate a Horn distance matrix |

calcLogVal | Calculate log value of RNAseq columns |

calculateThirdPosBias | Calculate the third position bias of polymorphisms |

countData | Expression data for use in examples for the rnaseqWrapper... |

dataFile | Data for use in examples for the rnaseqWrapper package |

DESeqWrapper | A wrapper for DESeq |

determineSynonymous | Determine whether or not variants are synonomous |

heatmap.mark | Enhanced Heat Map, further modified |

kaksFromVariants | Calculate Ka/Ks ratios from a table of variants |

mergeCountFiles | Merge multiple expression count data files for RNAseq |

nSynNonSites | Calculate the number of (non) synonomous sites |

parseVarScan | Parse a VarScan output |

readVariantFiles | Read in variant files for RNAseq |

rnaseqWrapper-package | A Wrapper for RNAseq analysis |

runGOAnalysis | Run basic GO analysis |

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