Examine RT error rates through sequencing.

barplot_matrices | Make a bar plot for every type of data returned by... |

classify_sequences | Given a set of sequences containing mutations and identical... |

count_mutation_direction | Count up how many reads are on the forward and reverse... |

count_mutation_types | Count up all sorts of fun mutation types in the data! |

create_matrices | Given a samples sheet with some metadata, create a big pile... |

errRt | errRt: Some functions for analyzing sequencing data intended... |

expand_mutation_string | Combine the columns describing a mutation into a single... |

filter_max_mutations | Filter away reads which have > n mutations in them. |

filter_max_position | Filter away reads after position x. |

filter_min_position | Filter away reads before position x. |

filter_ns | Filter away reads which contain Ns. |

filter_pruned_indexes | Filter away reads which are associated with indexes that have... |

matrices_from_tables | Given the many tables provided by quantify, merge them into... |

normalize_matrices | Invoke some normalization methods on the various matrices... |

pipe | Pipe operator |

plot_index_density | Make a density plot of how many indexes are associated with... |

prune_indexes | Summarize the mutant/identical data with respect to the... |

quantify_parsed | Quantify the tables of reads identical/different to/from the... |

sequencer_error | Calculate a lower limit error rate for the sequencer. |

write_matrices | Make a pretty xlsx file of the various summary statistics and... |

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