clones.ind: Data frame: clones of one individual
In bcRep: Advanced Analysis of B Cell Receptor Repertoire Data

This data frame represents the ouput of the function clones() for one individual (1000 clones).

1	data("clones.ind")

A data frame with 1000 observations on the following 14 variables.

unique_CDR3_sequences_AA: a character vector
CDR3_length_AA: a numeric vector
number_of_unique_sequences: a numeric vector
total_number_of_sequences: a numeric vector
sequence_count_per_CDR3: a character vector
V_gene: a character vector
V_gene_and_allele: a character vector
J_gene: a character vector
J_gene_and_allele: a character vector
D_gene: a character vector
all_CDR3_sequences_AA: a character vector
all_CDR3_sequences_nt: a character vector
Functionality_all_sequences: a character vector
Junction_frame_all_sequences: a character vector

data(clones.ind)
str(clones.ind)
boxplot(clones.ind$CDR3_length_AA,ylab="CDR3 length [AA]",xaxt="n",
     main="CDR3 length distribution of clones")

sh: 1: cannot create /dev/null: Permission denied
sh: 1: wc: Permission denied
Could not detect number of cores, defaulting to 1.
'data.frame':	1000 obs. of  14 variables:
 $ unique_CDR3_sequences_AA    : chr  "ARERADY, AKERADY, AGERADY" "AKDSDPTV, AKDSDPTG" "ARDSTFDY, ARDSTFGY" "ARGTPADY, ARGMPADY" ...
 $ CDR3_length_AA              : num  7 8 8 8 8 8 8 9 10 10 ...
 $ number_of_unique_sequences  : num  3 2 2 2 2 3 2 2 2 2 ...
 $ total_number_of_sequences   : num  45 12 243 130 14 244 59 68 44 296 ...
 $ sequence_count_per_CDR3     : chr  "42, 2, 1" "11, 1" "242, 1" "129, 1" ...
 $ V_gene                      : chr  "IGHV3-30-3" "IGHV3-30-3" "IGHV3-30-3" "IGHV3-30-3" ...
 $ V_gene_and_allele           : chr  "Homsap IGHV3-30-3*01 F, Homsap IGHV3-30*04 F, or Homsap IGHV3-30*07 F or Homsap IGHV3-30-3*03 F, Homsap IGHV3-3"| __truncated__ "Homsap IGHV3-30-3*01 F, Homsap IGHV3-30*04 F, or Homsap IGHV3-30*07 F or Homsap IGHV3-30-3*03 F, Homsap IGHV3-3"| __truncated__ "Homsap IGHV3-30-3*01 F, Homsap IGHV3-30*04 F, or Homsap IGHV3-30-3*03 F, Homsap IGHV3-30-3*02 F, Homsap IGHV3-3"| __truncated__ "Homsap IGHV3-30-3*01 F, Homsap IGHV3-30*03 F, or Homsap IGHV3-30*18 F or Homsap IGHV3-30*19 F or Homsap IGHV3-3"| __truncated__ ...
 $ J_gene                      : chr  "IGHJ4" "IGHJ4" "IGHJ4" "IGHJ4" ...
 $ J_gene_and_allele           : chr  "Homsap IGHJ4*02 F" "Homsap IGHJ4*02 F" "Homsap IGHJ4*02 F" "Homsap IGHJ4*02 F" ...
 $ D_gene                      : chr  "Homsap IGHD1-1*01 F, Homsap IGHD4-17*01 F, Homsap IGHD5-24*01 ORF" "Homsap IGHD4-11*01 ORF" "Homsap IGHD1-1*01 F" "Homsap IGHD4-17*01 F, Homsap IGHD6-25*01 F" ...
 $ all_CDR3_sequences_AA       : chr  "ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARERADY, ARE"| __truncated__ "AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTV, AKDSDPTG" "ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, ARDSTFDY, A"| __truncated__ "ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, ARGTPADY, A"| __truncated__ ...
 $ all_CDR3_sequences_nt       : chr  "gcgagagaacgggctgactac, gcgagagaacgggctgactac, gcgagagaacgggctgactac, gcgagagaacgggctgactac, gcgagagaacgggctgact"| __truncated__ "gcgaaagacagtgacccgaccgtc, gcgaaagacagtgacccgaccgtc, gcgaaagacagtgacccgaccgtc, gcgaaagacagtgacccgaccgtc, gcgaaag"| __truncated__ "gcgagagactcaacctttgactac, gcgagagactcaacctttgactac, gcgagagactcaacctttgactac, gcgagagactcaacctttgactac, gcgagag"| __truncated__ "gcgagagggacgccggcggactac, gcgagagggacgccggcggactac, gcgagagggacgccggcggactac, gcgagagggacgccggcggactac, gcgagag"| __truncated__ ...
 $ Functionality_all_sequences : chr  "productive, productive, unproductive, productive, productive, unproductive, productive, productive, productive,"| __truncated__ "productive, unproductive, productive, productive, productive, productive, unproductive, productive, productive,"| __truncated__ "productive, productive, productive, productive, productive, productive, productive, productive, productive, pro"| __truncated__ "productive, productive, productive, productive, productive, productive, productive, productive, productive, pro"| __truncated__ ...
 $ Junction_frame_all_sequences: chr  "in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, i"| __truncated__ "in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame" "in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, i"| __truncated__ "in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, in-frame, i"| __truncated__ ...