Man pages for rTCRBCRr
Repertoire Analysis of the Detected Clonotype

all_sample_all_chain_all_metrics_wide_format_dataframea dataframe of wide format
all_sample_all_chain_all_metrics_wide_format_dataframe_lista dataframe list to combine rowwise.
all_sample_all_chain_individual_metrics_dataframe_lista list of dataframes
all_sample_IGH_chain_all_metrics_wide_format_dataframea dataframe of wide format
all_sample_IGH_chain_all_metrics_wide_format_dataframe_lista dataframe list to combine rowwise.
all_sample_IGH_chain_individual_metrics_dataframe_lista list of dataframes
annotate_chain_name_and_isotype_nameAnnotate chain name and isotype name
calculate_IGH_isotype_proportioncalculate_IGH_isotype_proportion
calculate_repertoire_metricscalculate_repertoire_metrics
calibrate_proportion_by_clonescalibrate_proportion_by_clones
chain_separated_dataframea dataframe separated by chain name
combine_all_sample_repertoire_metricscombine_all_sample_repertoire_metrics
compute_repertoire_metrics_by_chain_namecompute_repertoire_metrics_by_chain_name
convergent_clonotype_merged_dataframea dataframe where convergent clonotypes are merged
format_clonotype_to_immunarch_styleConvert clonotype dataframe to immunarch format
get_item_name_x_sample_name_for_each_metricget_item_name_x_sample_name_for_each_metric
immunarch_style_dataframeAn converted dataframe to immunarch format
merge_convergent_clonotypeMerge convergent clonotype
nonproductive_CDR3aa_removed_dataframea dataframe with nonproductive CDR3aa removed
parse_mixcrParse mixcr format
parse_trust4Parse trust4 format
raw_input_clonotype_dataframeRaw clonotype output from trust4
remove_nonproductive_CDR3aaClean the clonotype dataframe
rTCRBCRr-packagerTCRBCRr: Repertoire Analysis of the Detected Clonotype
summarize_convergence_functionsummarize_convergence_function
summarize_repertoire_metricssummarize_repertoire_metrics
the_divergent_clonotype_dataframe_lista list of dataframe where convergent clonotypes are merged
the-global-variablesMake variable names global to avoid CHECK notes
rTCRBCRr documentation built on Aug. 17, 2022, 1:08 a.m.