Man pages for abelew/Rerrrt
Examine RT error rates through sequencing.
| add_index_densities | Extract the numbers from the growing density matrix for this... |
| 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_proportion | Filter out thing which are of an insufficient proportion. |
| filter_pruned_indexes | Filter away reads which are associated with indexes that have... |
| make_index_table | Given the large table of index counts for one sample, bring... |
| 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_legend_sheet | Write an initial sheet describing what to expect in the rest... |
| write_matrices | Make a pretty xlsx file of the various summary statistics and... |
| write_matrix_sheet | Write out a worksheet containing one group of error rate... |
