Description Usage Arguments Value Examples
View source: R/plot_repertoire_A_vs_B.R
Comparative plots of main repertoire features of two input repertoires (length distribution, amino acid frequency, VDJ usage, kmer occurrence)
1 2 3 | plot_repertoire_A_vs_B(repertoire_A, repertoire_B,
names_repertoires = c("Repertoire_A", "Repertoire_B"),
length_aa_plot = 14, output_dir = "", verbose = TRUE)
|
repertoire_A |
An annotated AIRR-compliant immuneSIM repertoire. (http://docs.airr-community.org/en/latest/) |
repertoire_B |
An annotated AIRR-compliant immuneSIM repertoire. |
names_repertoires |
A vector containing two strings denoting the names of the repertoires / repertoire descriptions. |
length_aa_plot |
Defines sequence length for which the amino acid frequency plot will be made. |
output_dir |
String containing full path of desired output folder. If empty, figures will be output in tempdir(). |
verbose |
Determines whether messages on plot locations are output to user. (Default: TRUE) |
TRUE (plots saved as pdfs into subfolder 'figures')
1 2 3 4 5 6 7 8 | repertoire_A <- list_example_repertoires[["example_repertoire_A"]]
repertoire_B <- list_example_repertoires[["example_repertoire_B"]]
plot_repertoire_A_vs_B(
repertoire_A,
repertoire_B,
c("Sim_repertoire_1","Sim_repertoire_2"),
length_aa_plot = 14,
output_dir="")
|
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