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