Subset Profiling and Organizing Tools for Gel Electrophoresis Autoradiography in R

bin_gel | Force multiple gels to share identical bins |

build_data_for_dewarping | Create data for Bayesian 2D dewarping |

compute_local_relative_score | Compute local relative scores: |

compute_score_mat_peak | Get the bins for bands: |

correct_batch_effect_by_ref | Piecewise-linear warping to correct batch effects |

create_batch_aligned_data | Create the binned data after piecewise linear warping |

crop_end | remove the right end of the gel image |

dewarp2d | Fit Bayesian 2D image dewarping models |

edges | Get the two-sided end points |

image_gel | Make grayscale heatmap for one gel |

make_list | Takes any number of R objects as arguments and returns a list... |

myARI | Compare two partitions (could be of different lengths) |

pair2id | This function convert ids: (will need to move to the spotgear... |

plot_lane | Plot intensity of lanes (for raw data prior to cropping) |

pwl | Piecewise linear warping function for one index in the... |

pwl_after_dewarping | Piecewise linear warping after aligning the landmarks |

read_dewarp_folder | Read data and other model information from a folder that... |

read_IPdata | Read Immuno-Precipitation (IP) data |

sign_score | Calculate relative scores for peak calling |

smooth_gel | Initial smoothing using the obtained raw intensities for all... |

spotgear | spotgear: *S*ubset *P*rofiling and *O*rganizing *T*ools for... |

spotgear_identifyMajorPeaks | Identify peaks based on the ridges in 2-D CWT coefficient... |

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