ntseqtab: Summary of nucleotide sequences of B cells of one individual
In bcRep: Advanced Analysis of B Cell Receptor Repertoire Data
Description
Usage
Format
References
Examples
Description
Data frame represents an output from IMGT/HighV-QUEST, file 3_Nt-sequences(...).txt
Usage
1
data("ntseqtab")
Format
A data frame with 3000 observations on the following 114 variables.
Sequence_numbera numeric vector
Sequence_IDa character vector
Functionalitya character vector
V_GENE_and_allelea character vector
J_GENE_and_allelea character vector
D_GENE_and_allelea character vector
V_D_J_REGIONa character vector
V_J_REGIONa character vector
V_REGIONa character vector
FR1_IMGTa character vector
CDR1_IMGTa character vector
FR2_IMGTa character vector
CDR2_IMGTa character vector
FR3_IMGTa character vector
CDR3_IMGTa character vector
JUNCTIONa character vector
3V_REGIONa character vector
(N_D)_J_REGIONa character vector
(N_D)_REGIONa character vector
P3Va character vector
N_REGIONa character vector
N1_REGIONa character vector
P5Da character vector
D_REGIONa character vector
P3Da character vector
P5D1a logical vector
D1_REGIONa character vector
P3D1a character vector
N2_REGIONa character vector
P5D2a character vector
D2_REGIONa character vector
P3D2a character vector
N3_REGIONa character vector
P5D3a character vector
D3_REGIONa character vector
P3D3a character vector
N4_REGIONa character vector
P5Ja character vector
5J_REGIONa character vector
D_J_REGIONa character vector
J_REGIONa character vector
FR4_IMGTa character vector
V_D_J_REGION_starta numeric vector
V_D_J_REGION_enda numeric vector
V_J_REGION_starta numeric vector
V_J_REGION_enda logical vector
V_REGION_starta numeric vector
V_REGION_enda numeric vector
FR1_IMGT_starta numeric vector
FR1_IMGT_enda numeric vector
CDR1_IMGT_starta numeric vector
CDR1_IMGT_enda numeric vector
FR2_IMGT_starta numeric vector
FR2_IMGT_enda numeric vector
CDR2_IMGT_starta numeric vector
CDR2_IMGT_enda numeric vector
FR3_IMGT_starta numeric vector
FR3_IMGT_enda numeric vector
CDR3_IMGT_starta numeric vector
CDR3_IMGT_enda numeric vector
JUNCTION_starta numeric vector
JUNCTION_enda numeric vector
3V_REGION_starta numeric vector
3V_REGION_enda numeric vector
(N_D)_J_REGION_starta numeric vector
(N_D)_J_REGION_enda numeric vector
(N_D)_REGION_starta numeric vector
(N_D)_REGION_enda numeric vector
P3V_starta numeric vector
P3V_enda numeric vector
N_REGION_starta numeric vector
N_REGION_enda numeric vector
N1_REGION_starta numeric vector
N1_REGION_enda numeric vector
P5D_starta numeric vector
P5D_enda numeric vector
D_REGION_starta numeric vector
D_REGION_enda numeric vector
P3D_starta numeric vector
P3D_enda numeric vector
P5D1_starta numeric vector
P5D1_enda numeric vector
D1_REGION_starta numeric vector
D1_REGION_enda numeric vector
P3D1_starta numeric vector
P3D1_enda numeric vector
N2_REGION_starta numeric vector
N2_REGION_enda numeric vector
P5D2_startanumeric vector
P5D2_enda numeric vector
D2_REGION_starta numeric vector
D2_REGION_enda numeric vector
P3D2_starta numeric vector
P3D2_enda numeric vector
N3_REGION_starta numeric vector
N3_REGION_enda numeric vector
P5D3_starta numeric vector
P5D3_enda numeric vector
D3_REGION_starta numeric vector
D3_REGION_enda numeric vector
P3D3_starta numeric vector
P3D3_enda numeric vector
N4_REGION_starta numeric vector
N4_REGION_enda numeric vector
P5J_starta numeric vector
P5J_enda numeric vector
5J_REGION_starta numeric vector
5J_REGION_enda numeric vector
D_J_REGION_starta numeric vector
D_J_REGION_enda numeric vector
J_REGION_starta numeric vector
J_REGION_enda numeric vector
FR4_IMGT_starta numeric vector
FR4_IMGT_enda numeric vector
References
Alamyar, E. et al., IMGT/HighV-QUEST: A High-Throughput System and Web Portal for the Analysis of Rearranged Nucleotide Sequences of Antigen Receptors, JOBIM 2010, Paper 63 (2010).
Brochet, X. et al., Nucl. Acids Res. 36, W503-508 (2008). PMID: 18503082
IMGT/HighV-QUEST 3_Nt-sequences file description: http://www.imgt.org/IMGT_vquest/share/textes/imgtvquest.html#Ent
Examples
1
2
bcRep documentation built on May 2, 2019, 5:14 a.m.
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Description Usage Format References Examples
Description
Data frame represents an output from IMGT/HighV-QUEST, file 3_Nt-sequences(...).txt
Usage
1 | data("ntseqtab")
|
Format
A data frame with 3000 observations on the following 114 variables.
Sequence_numbera numeric vector
Sequence_IDa character vector
Functionalitya character vector
V_GENE_and_allelea character vector
J_GENE_and_allelea character vector
D_GENE_and_allelea character vector
V_D_J_REGIONa character vector
V_J_REGIONa character vector
V_REGIONa character vector
FR1_IMGTa character vector
CDR1_IMGTa character vector
FR2_IMGTa character vector
CDR2_IMGTa character vector
FR3_IMGTa character vector
CDR3_IMGTa character vector
JUNCTIONa character vector
3V_REGIONa character vector
(N_D)_J_REGIONa character vector
(N_D)_REGIONa character vector
P3Va character vector
N_REGIONa character vector
N1_REGIONa character vector
P5Da character vector
D_REGIONa character vector
P3Da character vector
P5D1a logical vector
D1_REGIONa character vector
P3D1a character vector
N2_REGIONa character vector
P5D2a character vector
D2_REGIONa character vector
P3D2a character vector
N3_REGIONa character vector
P5D3a character vector
D3_REGIONa character vector
P3D3a character vector
N4_REGIONa character vector
P5Ja character vector
5J_REGIONa character vector
D_J_REGIONa character vector
J_REGIONa character vector
FR4_IMGTa character vector
V_D_J_REGION_starta numeric vector
V_D_J_REGION_enda numeric vector
V_J_REGION_starta numeric vector
V_J_REGION_enda logical vector
V_REGION_starta numeric vector
V_REGION_enda numeric vector
FR1_IMGT_starta numeric vector
FR1_IMGT_enda numeric vector
CDR1_IMGT_starta numeric vector
CDR1_IMGT_enda numeric vector
FR2_IMGT_starta numeric vector
FR2_IMGT_enda numeric vector
CDR2_IMGT_starta numeric vector
CDR2_IMGT_enda numeric vector
FR3_IMGT_starta numeric vector
FR3_IMGT_enda numeric vector
CDR3_IMGT_starta numeric vector
CDR3_IMGT_enda numeric vector
JUNCTION_starta numeric vector
JUNCTION_enda numeric vector
3V_REGION_starta numeric vector
3V_REGION_enda numeric vector
(N_D)_J_REGION_starta numeric vector
(N_D)_J_REGION_enda numeric vector
(N_D)_REGION_starta numeric vector
(N_D)_REGION_enda numeric vector
P3V_starta numeric vector
P3V_enda numeric vector
N_REGION_starta numeric vector
N_REGION_enda numeric vector
N1_REGION_starta numeric vector
N1_REGION_enda numeric vector
P5D_starta numeric vector
P5D_enda numeric vector
D_REGION_starta numeric vector
D_REGION_enda numeric vector
P3D_starta numeric vector
P3D_enda numeric vector
P5D1_starta numeric vector
P5D1_enda numeric vector
D1_REGION_starta numeric vector
D1_REGION_enda numeric vector
P3D1_starta numeric vector
P3D1_enda numeric vector
N2_REGION_starta numeric vector
N2_REGION_enda numeric vector
P5D2_startanumeric vector
P5D2_enda numeric vector
D2_REGION_starta numeric vector
D2_REGION_enda numeric vector
P3D2_starta numeric vector
P3D2_enda numeric vector
N3_REGION_starta numeric vector
N3_REGION_enda numeric vector
P5D3_starta numeric vector
P5D3_enda numeric vector
D3_REGION_starta numeric vector
D3_REGION_enda numeric vector
P3D3_starta numeric vector
P3D3_enda numeric vector
N4_REGION_starta numeric vector
N4_REGION_enda numeric vector
P5J_starta numeric vector
P5J_enda numeric vector
5J_REGION_starta numeric vector
5J_REGION_enda numeric vector
D_J_REGION_starta numeric vector
D_J_REGION_enda numeric vector
J_REGION_starta numeric vector
J_REGION_enda numeric vector
FR4_IMGT_starta numeric vector
FR4_IMGT_enda numeric vector
References
Alamyar, E. et al., IMGT/HighV-QUEST: A High-Throughput System and Web Portal for the Analysis of Rearranged Nucleotide Sequences of Antigen Receptors, JOBIM 2010, Paper 63 (2010).
Brochet, X. et al., Nucl. Acids Res. 36, W503-508 (2008). PMID: 18503082
IMGT/HighV-QUEST 3_Nt-sequences file description: http://www.imgt.org/IMGT_vquest/share/textes/imgtvquest.html#Ent
Examples
1 2 |
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