| dimsum |
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| dimsum__aggregate_AA_variants |
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| dimsum__aggregate_AA_variants_fitness |
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| dimsum__bayesian_double_fitness |
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| dimsum__calculate_fitness |
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| dimsum__cbind_fill |
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| dimsum__check_barcode_design |
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| dimsum__check_barcodeidentityfile |
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| dimsum__check_countfile |
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| dimsum__check_experiment_design |
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| dimsum__check_experiment_design_countfile |
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| dimsum__check_files_exist |
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| dimsum__check_variants |
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| dimsum__concatenate_reads |
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| dimsum__convert_linked_adapters |
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| dimsum__create_dir |
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| dimsum__cutadapt_report |
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| dimsum__debarcode_variants |
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| dimsum__demultiplex_cp_helper |
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| dimsum__demultiplex_helper |
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| dimsum__derange_df |
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| dimsum__detect_sequence_type |
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| dimsum__diagnostics_report |
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| dimsum__error_model |
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| dimsum__error_model_qqplot |
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| dimsum__fastqc_report |
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| dimsum__filter_nuc_variants |
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| dimsum__filter_reads |
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| dimsum__filter_reads_helper |
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| dimsum__filter_single_end_reads |
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| dimsum__filter_variants_coding |
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| dimsum__filter_variants_noncoding |
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| dimsum__fit_error_model |
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| dimsum__fit_error_model_bootstrap |
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| dimsum__get_barcode_design |
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| dimsum__get_cutadapt_options |
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| dimsum__get_experiment_design |
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| dimsum__get_synonymsequences |
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| dimsum__gg_color_hue |
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| dimsum__ggpairs_binhex |
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| dimsum__hamming_distance |
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| dimsum__identify_STOP_mutations |
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| dimsum__identify_double_aa_mutations |
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| dimsum__identify_double_nt_mutations |
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| dimsum__identify_permitted_mutations |
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| dimsum__identify_single_aa_mutations |
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| dimsum__identify_single_nt_mutations |
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| dimsum__infer_growth_rates |
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| dimsum__merge_fitness |
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| dimsum__merge_report |
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| dimsum__normalise_fitness |
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| dimsum__parse_cutadapt_output |
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| dimsum__parse_cutadapt_output_single_end |
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| dimsum__parse_minimum_read_count_arguments |
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| dimsum__plot_samplename |
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| dimsum__process_merged_variants |
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| dimsum__range_df |
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| dimsum__remove_internal_constant_region |
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| dimsum__render_report |
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| dimsum__replicate_fitness_deviation |
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| dimsum__sample_count_distributions |
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| dimsum__save_metadata |
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| dimsum__save_png |
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| dimsum__status_message |
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| dimsum__sum_datatable_columns |
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| dimsum__swap_reads |
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| dimsum__unique_helper |
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| dimsum__unzip_helper |
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| dimsum__validate_input |
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| dimsum__vsearch_report |
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| dimsum__vsearch_single_end_library_helper |
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| dimsum__vsearch_trans_library_helper |
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| dimsum__writeFastq |
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| dimsum_stage_counts_to_fitness |
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| dimsum_stage_cutadapt |
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| dimsum_stage_demultiplex |
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| dimsum_stage_fastqc |
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| dimsum_stage_merge |
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| dimsum_stage_unique |
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| dimsum_stage_unzip |
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| dimsum_stage_vsearch |
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