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rTCRBCRr  

Repertoire Analysis of the Detected Clonotype
View on CRAN: Click here


Download and install rTCRBCRr package within the R console
Install from CRAN:
install.packages("rTCRBCRr")

Install from Github:
library("remotes")
install_github("cran/rTCRBCRr")

Install by package version:
library("remotes")
install_version("rTCRBCRr", "0.1.1")



Attach the package and use:
library("rTCRBCRr")
Maintained by
Lizhong Ding
[Scholar Profile | Author Map]
First Published: 2022-06-27
Latest Update: 2022-08-16
Description:
The 'TRUST4' or 'MiXCR' is used to identify the clonotypes. The goal of 'rTCRBCRr' is to process the results from these clonotyping tools, and analyze the clonotype repertoire metrics based on chain names and IGH isotypes. The manuscript is still under preparation for publication for now. The references describing the methods in this package will be added later.
How to cite:
Lizhong Ding (2022). rTCRBCRr: Repertoire Analysis of the Detected Clonotype. R package version 0.1.1, https://cran.r-project.org/web/packages/rTCRBCRr. Accessed 27 Mar. 2025.
Previous versions and publish date:
0.1.0 (2022-06-27 09:20)
Other packages that cited rTCRBCRr R package
View rTCRBCRr citation profile
Other R packages that rTCRBCRr depends, imports, suggests or enhances
Complete documentation for rTCRBCRr
Functions, R codes and Examples using the rTCRBCRr R package
Some associated functions: all_sample_IGH_chain_all_metrics_wide_format_dataframe . all_sample_IGH_chain_all_metrics_wide_format_dataframe_list . all_sample_IGH_chain_individual_metrics_dataframe_list . all_sample_all_chain_all_metrics_wide_format_dataframe . all_sample_all_chain_all_metrics_wide_format_dataframe_list . all_sample_all_chain_individual_metrics_dataframe_list . annotate_chain_name_and_isotype_name . calculate_IGH_isotype_proportion . calculate_repertoire_metrics . calibrate_proportion_by_clones . chain_separated_dataframe . combine_all_sample_repertoire_metrics . compute_repertoire_metrics_by_chain_name . convergent_clonotype_merged_dataframe . format_clonotype_to_immunarch_style . get_item_name_x_sample_name_for_each_metric . immunarch_style_dataframe . merge_convergent_clonotype . nonproductive_CDR3aa_removed_dataframe . parse_mixcr . parse_trust4 . rTCRBCRr-package . raw_input_clonotype_dataframe . remove_nonproductive_CDR3aa . summarize_convergence_function . summarize_repertoire_metrics . the-global-variables . the_divergent_clonotype_dataframe_list . 
Some associated R codes: annotate_chain_name_and_isotype_name.R . calculate_IGH_isotype_proportion.R . calibrate_proportion_by_clones.R . combine_all_sample_repertoire_metrics.R . compute_repertoire_metrics_by_chain_name.R . data.R . format_clonotype_to_immunarch_style.R . get_item_name_x_sample_name_for_each_metric.R . globals.R . merge_convergent_clonotype.R . rTCRBCRr-package.R . remove_nonproductive_CDR3aa.R .  Full rTCRBCRr package functions and examples
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