FDR-controlled analysis of 2D-TPP experiments

annotateDataList | Annotate imported data list using a config table |

bootstrapNull | Bootstrap null distribution of F statistics for FDR... |

competeModels | Compete H0 and H1 models per protein and obtain F statistic |

computeFdr | Compute FDR for given F statistics based on true and null... |

computeFstat | Compute F statistic from H1 and H0 model characteristics |

config_tab | Example config table for a import of a simulated 2D-TPP cell... |

configWide2Long | Tranform configuration table from wide to long |

filterOutContaminants | Filter out contaminants |

findHits | Find hits according to FDR threshold |

fitAndEvalDataset | Fit H0 and H1 model to 2D thermal profiles of proteins and... |

fitH0Model | Fit H0 model and evaluate fit statistics |

fitH1Model | Fit H1 model and evaluate fit statistics |

gg_qq | Plot qq-plot of true data and bootstrapped null with ggplot |

import2dDataset | Import 2D-TPP dataset using a config table |

import2dMain | Import 2D-TPP dataset main function |

moderateOutliers | Moderate outlier measurements |

plot2dTppFit | Plot H0 or H1 fit of 2D thermal profile intensities of a... |

plot2dTppProfile | Plot 2D thermal profile intensities of a protein of choice |

plot2dTppRelProfile | Plot 2D thermal profile ratios of a protein of choice |

raw_dat_list | Example raw data for a subset of a simulated 2D-TPP cell... |

recomputeSignalFromRatios | Recompute robust signal intensities based on bootstrapped TMT... |

renameColumns | Rename columns of imported data frame |

simulated_cell_extract_df | Example subset of a simulated 2D-TPP cell extract dataset |

TPP_importCheckConfigTable | Import and chech configuration table |

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