Model-Based Comparative Analysis of the TCR Repertoire


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Documentation for package ‘powerTCR’ version 1.7.0

Help Pages

clusterPlot Visualize hierarchical clustering of samples
ddiscgammagpd The discrete gamma-GPD spliced threshold distribution
fdesponds Fit the type-I Pareto distribution as according to Desponds et al. (2016)
fdiscgammagpd Fit the discrete gamma-GPD spliced threshold model
get_bootstraps Get bootstrapped fits for a list of fitted models
get_distances Compute matrix of pairwise Jensen-Shannon Distances
get_diversity Grab important output from a list of fits
get_mle Grab important output from a list of fits
get_nllh Grab important output from a list of fits
JS_desponds Compute the Jensen-Shannon distance between two fitted distributions using the Desponds model
JS_dist Compute the Jensen-Shannon distance between two model fits
JS_spliced Compute the Jensen-Shannon distance between two fitted discrete gamma-GPD spliced threshold distributions
parseFile Load in and parse TCR data files for use by powerTCR
parseFolder Load in and parse TCR data files for use by powerTCR
pdiscgammagpd The discrete gamma-GPD spliced threshold distribution
qdiscgammagpd The discrete gamma-GPD spliced threshold distribution
rdiscgammagpd The discrete gamma-GPD spliced threshold distribution
repertoires Two toy examples of sample TCR repertoires.