R/VDJ_expand_aberrants.R
VDJ_expand_aberrants.RdExpand the aberrant cells in a VDJ dataframe by converting them into additional rows. Aberrant cells consist of cells with more than 1 VDJ or VJ chain.
VDJ_expand_aberrants(
VDJ,
chain.to.expand,
add.barcode.prefix,
additional.VDJ.features,
additional.VJ.features,
add.CDR3aa,
add.expanded.number,
recalculate.clonotype.frequency
)VDJ or VDJ.GEX.matrix[[1]] object, as obtained from the VDJ_GEX_matrix function in Platypus.
string, 'VDJ' to expand VDJ aberrants, 'VJ' to expand VJ aberrants, 'VDJ.VJ' for both.
boolean - if T, a new barcode will be added for each expanded aberrant.
vector of strings - VDJ_expand_aberrants will only expand across the sequence columns of VDJ. If you have additional columns with aberrant cell features (e.g., both 'yes' and 'no' binders for a single sequence), where the aberrants are VDJ-specific, include them here.
vector of strings - VDJ_expand_aberrants will only expand across the sequence columns of VDJ. If you have additional columns with aberrant cell features (e.g., both 'yes' and 'no' binders for a single sequence), where the aberrants are VJ-specific, include them here.
boolean - if T, will create a new column 'CDR3aa' with pasted VDJ_cdr3s_aa and VJ_cdr3s_aa.
boolean - if T, will add the number of new cells resulting from an aberrant one.
boolean - if T, will recalculate the clonotype frequencies for the resulting, expanded VDJ.
Returns a VDJ format dataframe in which cells with more than one VDJ or VJ chain are split into multiple rows each containing only one VDJ VJ chain combination.
VDJ_expand_aberrants(VDJ = small_vgm[[1]],
chain.to.expand='VDJ.VJ',
add.barcode.prefix=TRUE, recalculate.clonotype.frequency=FALSE)
#> barcode sample_id group_id clonotype_id_10x celltype
#> 1 s1_TATGCCCCAGCTTCGG-1 s1 rMOG clonotype7 B cell
#> 2 s1_CCCAGTTAGCAGGTCA-1 s1 rMOG clonotype2053 B cell
#> 3 s1_CGTTGGGAGGGATCTG-1 s1 rMOG clonotype2386 B cell
#> 4 s2_CGAACATAGTGACATA-1 s2 rMOG clonotype441 B cell
#> 5 s1_ACGATGTTCAAACCGT-1 s1 rMOG clonotype2040 B cell
#> 6 s2_1_AGGTCATTCTTGGGTA-1 s2 rMOG clonotype516 B cell
#> 7 s2_2_AGGTCATTCTTGGGTA-1 s2 rMOG clonotype516 B cell
#> 8 s3_ATGCGATTCCCATTAT-1 s3 MOG35-55 clonotype141 B cell
#> 9 s1_ATGAGGGCAATGAATG-1 s1 rMOG clonotype743 B cell
#> 10 s3_AGCGTATCACGGACAA-1 s3 MOG35-55 clonotype390 B cell
#> 11 s3_GTGCGGTAGCCCAGCT-1 s3 MOG35-55 clonotype464 B cell
#> 12 s3_TTCTTAGCATTAGGCT-1 s3 MOG35-55 clonotype10 B cell
#> 13 s1_GCTGGGTGTCCAGTTA-1 s1 rMOG clonotype1725 B cell
#> 14 s1_CTACGTCCAAAGGCGT-1 s1 rMOG clonotype1243 B cell
#> 15 s1_GATCGATAGTTAGCGG-1 s1 rMOG clonotype2271 B cell
#> 16 s3_TGGGCGTTCGGTTCGG-1 s3 MOG35-55 clonotype1028 B cell
#> 17 s3_ATTATCCAGTTCGATC-1 s3 MOG35-55 clonotype592 B cell
#> 18 s2_CCTCTGACACCAGATT-1 s2 rMOG clonotype649 B cell
#> 19 s2_CTACCCAAGACTAGAT-1 s2 rMOG clonotype634 B cell
#> Nr_of_VDJ_chains Nr_of_VJ_chains VDJ_cdr3s_aa
#> 1 0 1
#> 2 1 0 CARSSLYYGNFYFDYW
#> 3 1 1 CTRNMRLRRGTGTGYAMDYW
#> 4 0 1
#> 5 1 1 CVRGGYDYDRDYFDFW
#> 6 2 2 CARNRITTVVAPMDYW
#> 7 2 2 CARKDYARGDYW
#> 8 1 1 CARWGIYDGYYGDAMDYW
#> 9 0 1
#> 10 1 1 CARTFAYW
#> 11 1 1 CARMVTGAYW
#> 12 0 1
#> 13 1 1 CARVNLHAMDYW
#> 14 1 1 CVRSWDYW
#> 15 1 1 CTFRIYYYGSSPYYFDYW
#> 16 1 1 CAREGYYGSSPYAMDYW
#> 17 1 1 CAREATVVADYW
#> 18 1 1 CASGGGNPWYFDVW
#> 19 1 1 CARPPLTGFAYW
#> VJ_cdr3s_aa
#> 1 CFQGSHVPWTF
#> 2
#> 3 CLQYDNLLWTF
#> 4 CAQNLELPWTF
#> 5 CAQNLELPYTF
#> 6 CQQSNSWPLTF;CQQGSSIPLTF
#> 7 CQQSNSWPLTF;CQQGSSIPLTF
#> 8 CALWYSNHLVF
#> 9 CLQYDEFPSTF
#> 10 CLQYASSPWTF
#> 11 CQNDYSYPLTF
#> 12 CGVGDTIKEQFVYVF
#> 13 CQHFWGTPRTF
#> 14 CQQYNSYPLTF
#> 15 CQQHYSTPFTF
#> 16 CLQYDNLFTF
#> 17 CQQSNEDPRTF
#> 18 CQQHYSTPYTF
#> 19 CHQYLSSWTF
#> VDJ_cdr3s_nt
#> 1
#> 2 TGTGCAAGATCTTCACTCTACTATGGTAACTTCTACTTTGACTACTGG
#> 3 TGTACAAGAAATATGAGATTACGACGCGGGACTGGGACTGGGTATGCTATGGACTACTGG
#> 4
#> 5 TGTGTCAGGGGGGGGTATGATTACGACAGGGACTACTTTGACTTCTGG
#> 6 TGTGCCAGAAATCGTATTACTACGGTAGTAGCCCCTATGGACTACTGG
#> 7 TGTGCCAGAAAAGACTACGCGAGAGGGGACTACTGG
#> 8 TGTGCAAGATGGGGGATCTATGATGGTTACTACGGGGATGCTATGGACTACTGG
#> 9
#> 10 TGTGCAAGGACGTTTGCTTACTGG
#> 11 TGTGCCCGTATGGTTACGGGTGCTTACTGG
#> 12
#> 13 TGTGCAAGAGTTAACCTGCATGCTATGGACTACTGG
#> 14 TGTGTGAGAAGTTGGGACTACTGG
#> 15 TGTACTTTCCGAATTTATTACTACGGTAGTAGCCCTTACTACTTTGACTACTGG
#> 16 TGTGCAAGAGAGGGTTACTACGGTAGTAGTCCCTATGCTATGGACTACTGG
#> 17 TGTGCAAGAGAGGCTACGGTAGTAGCGGACTACTGG
#> 18 TGTGCAAGCGGAGGGGGTAACCCCTGGTACTTCGATGTCTGG
#> 19 TGTGCTCGACCCCCTCTAACTGGTTTTGCTTACTGG
#> VJ_cdr3s_nt
#> 1 TGCTTTCAAGGTTCACATGTTCCGTGGACGTTC
#> 2
#> 3 TGTCTACAGTATGATAATCTTCTGTGGACGTTC
#> 4 TGTGCTCAAAATCTAGAACTTCCGTGGACGTTC
#> 5 TGTGCTCAAAATCTTGAACTTCCGTACACGTTC
#> 6 TGTCAACAAAGTAATAGCTGGCCGCTCACGTTC;TGCCAGCAGGGTAGTAGTATACCGCTCACGTTC
#> 7 TGTCAACAAAGTAATAGCTGGCCGCTCACGTTC;TGCCAGCAGGGTAGTAGTATACCGCTCACGTTC
#> 8 TGTGCTCTATGGTACAGCAACCATTTGGTGTTC
#> 9 TGTCTACAGTATGATGAGTTTCCGTCCACGTTC
#> 10 TGTCTACAATATGCTAGTTCTCCGTGGACGTTC
#> 11 TGTCAGAATGATTATAGTTATCCGCTCACGTTC
#> 12 TGTGGTGTGGGTGATACAATTAAGGAACAATTTGTGTATGTTTTC
#> 13 TGTCAACATTTTTGGGGTACTCCTCGGACGTTC
#> 14 TGTCAGCAATATAACAGCTATCCGCTCACGTTC
#> 15 TGTCAGCAACATTATAGTACTCCATTCACGTTC
#> 16 TGTCTACAGTATGATAATCTATTCACGTTC
#> 17 TGTCAGCAAAGTAATGAGGATCCTCGGACGTTC
#> 18 TGTCAGCAACATTATAGTACTCCGTACACGTTC
#> 19 TGTCATCAATACCTCTCCTCGTGGACGTTC
#> VDJ_chain_contig
#> 1
#> 2 CCCAGTTAGCAGGTCA-1_contig_1
#> 3 CGTTGGGAGGGATCTG-1_contig_2
#> 4
#> 5 ACGATGTTCAAACCGT-1_contig_1
#> 6 AGGTCATTCTTGGGTA-1_contig_3
#> 7 AGGTCATTCTTGGGTA-1_contig_4
#> 8 ATGCGATTCCCATTAT-1_contig_2
#> 9
#> 10 AGCGTATCACGGACAA-1_contig_1
#> 11 GTGCGGTAGCCCAGCT-1_contig_2
#> 12
#> 13 GCTGGGTGTCCAGTTA-1_contig_2
#> 14 CTACGTCCAAAGGCGT-1_contig_1
#> 15 GATCGATAGTTAGCGG-1_contig_1
#> 16 TGGGCGTTCGGTTCGG-1_contig_2
#> 17 ATTATCCAGTTCGATC-1_contig_2
#> 18 CCTCTGACACCAGATT-1_contig_2
#> 19 CTACCCAAGACTAGAT-1_contig_2
#> VJ_chain_contig VDJ_chain VJ_chain
#> 1 TATGCCCCAGCTTCGG-1_contig_1 IGK
#> 2 IGH
#> 3 CGTTGGGAGGGATCTG-1_contig_1 IGH IGK
#> 4 CGAACATAGTGACATA-1_contig_1 IGK
#> 5 ACGATGTTCAAACCGT-1_contig_2 IGH IGK
#> 6 AGGTCATTCTTGGGTA-1_contig_1;AGGTCATTCTTGGGTA-1_contig_2 IGH IGK;IGK
#> 7 AGGTCATTCTTGGGTA-1_contig_1;AGGTCATTCTTGGGTA-1_contig_2 IGH IGK;IGK
#> 8 ATGCGATTCCCATTAT-1_contig_1 IGH IGL
#> 9 ATGAGGGCAATGAATG-1_contig_1 IGK
#> 10 AGCGTATCACGGACAA-1_contig_2 IGH IGK
#> 11 GTGCGGTAGCCCAGCT-1_contig_1 IGH IGK
#> 12 TTCTTAGCATTAGGCT-1_contig_1 IGL
#> 13 GCTGGGTGTCCAGTTA-1_contig_1 IGH IGK
#> 14 CTACGTCCAAAGGCGT-1_contig_2 IGH IGK
#> 15 GATCGATAGTTAGCGG-1_contig_2 IGH IGK
#> 16 TGGGCGTTCGGTTCGG-1_contig_1 IGH IGK
#> 17 ATTATCCAGTTCGATC-1_contig_1 IGH IGK
#> 18 CCTCTGACACCAGATT-1_contig_1 IGH IGK
#> 19 CTACCCAAGACTAGAT-1_contig_1 IGH IGK
#> VDJ_vgene VJ_vgene VDJ_dgene VDJ_jgene VJ_jgene VDJ_cgene
#> 1 IGKV1-117 IGKJ1
#> 2 IGHV1-81 IGHD2-8 IGHJ2 IGHG2C
#> 3 IGHV5-9-1 IGKV19-93 IGHJ4 IGKJ1 IGHG2C
#> 4 IGKV2-109 IGKJ1
#> 5 IGHV2-2 IGKV2-109 IGHJ2 IGKJ2 IGHM
#> 6 IGHV2-9-1 IGKV5-48;IGKV4-91 IGHJ4 IGKJ5;IGKJ5 IGHM
#> 7 IGHV2-2 IGKV5-48;IGKV4-91 IGHJ4 IGKJ5;IGKJ5 IGHM
#> 8 IGHV1-69 IGLV1 IGHD2-3 IGHJ4 IGLJ1 IGHM
#> 9 IGKV14-111 IGKJ2
#> 10 IGHV1-64 IGKV9-120 IGHJ3 IGKJ1 IGHM
#> 11 IGHV1-64 IGKV8-19 IGHJ3 IGKJ5 IGHM
#> 12 IGLV3 IGLJ2
#> 13 IGHV7-1 IGKV12-46 IGHJ4 IGKJ1 IGHG2C
#> 14 IGHV10-1 IGKV6-15 IGHJ2 IGKJ5 IGHM
#> 15 IGHV14-4 IGKV6-17 IGHD1-1 IGHJ2 IGKJ4 IGHD
#> 16 IGHV1-55 IGKV19-93 IGHJ4 IGKJ4 IGHD
#> 17 IGHV9-3 IGKV3-5 IGHJ2 IGKJ1 IGHM
#> 18 IGHV1-81 IGKV6-17 IGHJ1 IGKJ2 IGHM
#> 19 IGHV8-8 IGKV8-27 IGHD4-1 IGHJ3 IGKJ1 IGHM
#> VJ_cgene
#> 1 IGKC
#> 2
#> 3 IGKC
#> 4 IGKC
#> 5 IGKC
#> 6 IGKC;IGKC
#> 7 IGKC;IGKC
#> 8 IGLC1
#> 9 IGKC
#> 10 IGKC
#> 11 IGKC
#> 12 IGLC2
#> 13 IGKC
#> 14 IGKC
#> 15 IGKC
#> 16 IGKC
#> 17 IGKC
#> 18 IGKC
#> 19 IGKC
#> VDJ_sequence_nt_raw
#> 1
#> 2 ACAACCTATGATCAATGTCTTCTTCACAGTCCCTGAACACACTGACTCTAACCATGGAATGGATCTGGATCTTTCTCTTCATCCTGTCAGGAACTGCAGGTGTCCAATCCCAGGTTCAGCTGCAGCAGTCTGGAGCTGAGCTGGCGAGGCCTGGGGCTTCAGTGAAGCTGTCCTGCAAGGCTTCTGGCTACACCTTCACAAGCTATGGTATAAGCTGGGTGAAGCAGAGAACTGGACAGGGCCTTGAGTGGATTGGAGAGATTTATCCTAGAAGTGGTAATACTTACTACAATGAGAAGTTCAAGGGCAAGGCCACACTGACTGCAGACAAATCCTCCAGCACAGCGTACATGGAGCTCCGCAGCCTGACATCTGAGGACTCTGCGGTCTATTTCTGTGCAAGATCTTCACTCTACTATGGTAACTTCTACTTTGACTACTGGGGCCAAGGCACCACTCTCACAGTCTCCTCAGCCAAAACAACAGCCCCATCGGTCTATCCACTGGCCCCTGTGTGTGGAGGTACAACTGGCTCCTCGGTGACTCTAGGATGCCTGGTCAAGGG
#> 3 CTGGAATTGATTCCTAGTTCCTCACGTTCAGTGATGAGTACTGAACACAGACCCCTCACCATGAACTTCGGGCTCAGATTGATTTTCCTTGTCCTTACTTTAAAAGGTGTCCAGTGTGACGTGAAGCTGGTGGAGTCTGGGGAAGGCTTAGTGAAGCCTGGAGGGTCCCTGAAACTCTCCTGTGCAGCCTCTGGATTCACTTTCAGTAGCTATGCCATGTCTTGGGTTCGCCAGACTCCAGAGAAGAGGCTGGAGTGGGTCGCATACATTAGTAGTGGTGGTGATTACATCTACTATGCAGACACTGTGAAGGGCCGATTCACCATCTCCAGAGACAATGCCAGGAACACCCTGTACCTGCAAATGAGCAGTCTGAAGTCTGAGGACACAGCCATGTATTACTGTACAAGAAATATGAGATTACGACGCGGGACTGGGACTGGGTATGCTATGGACTACTGGGGTCAAGGAACCTCAGTCACCGTCTCCTCAGCCAAAACAACAGCCCCATCGGTCTATCCACTGGCCCCTGTGTGTGGAGGTACAACTGGCTCCTCGGTGACTCTAGGATGCCTGGTCAAGGG
#> 4
#> 5 GATCCTCTTCTCATAGAGCCTCCATCAGAGCATGGCTGTCTTGGGGCTGCTCTTCTGCCTGGTGACATTCCCAAGCTGTGTCCTATCCCAGGTGCAGCTGAAGCAGTCAGGACCTGGCCTAGTGCAGCCCTCACAGAGCCTGTCCATCACCTGCACAGTCTCTGGTTTCTCATTAACTAGCTATGGTGTACACTGGATTCGCCAGTCTCCAGGAAAGGGTCTGGAGTGGCTGGGAGTGATATGGAGTGGTGGAACCACAGACTATAATGCAGCTTTCATATCCAGACTGAGCATCAGTAAGGACAGATCCAAGAGCCAAGTTTTCTTTAAAATGAACAGTCTGCAAGTTGATGACACAGCCATATATTATTGTGTCAGGGGGGGGTATGATTACGACAGGGACTACTTTGACTTCTGGGGCCAAGGCACCACTCTCTCAGTCTCCTCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGC
#> 6 TGGGGATCCTCTTCTCATAGAGCCTCCATCAGAGCATGGCTGTCCTGGCGCTACTCCTCTGCCTGGTGACTTTCCCAAGCTGTGCCCTGTCCCAGGTGCAGCTGAAGGAGTCAGGACCTGGCCTGGTGGCGCCCTCACAGAGCCTGTCCATCACATGCACTGTCTCTGGGTTCTCATTAACCAGCTATGCTATAAGCTGGGTTCGCCAGCCACCAGGAAAGGGTCTGGAGTGGCTTGGAGTAATATGGACTGGTGGAGGCACAAATTATAATTCAGCTCTCAAATCCAGACTGAGCATCAGCAAAGACAACTCCAAGAGTCAAGTTTTCTTAAAAATGAACAGTCTGCAAACTGATGACACAGCCAGGTACTACTGTGCCAGAAATCGTATTACTACGGTAGTAGCCCCTATGGACTACTGGGGTCAAGGAACCTCAGTCACCGTCTCCTCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 7 TGGGGATCCTCTTCTCATAGAGCCTCCATCAGAGCATGGCTGTCTTGGGGCTGCTCTTCTGCCTGGTGACATTCCCAAGCTGTGTCCTATCCCAGGTGCAGCTGAAGCAGTCAGGACCTGGCCTAGTGCAGCCCTCACAGAGCCTGTCCATCACCTGCACAGTCTCTGGTTTCTCATTAACTAGCTATGGTGTACACTGGGTTCGCCAGTCTCCAGGAAAGGGTCTGGAGTGGCTGGGAGTGATATGGAGTGGTGGAAGCACAGACTATAATGCAGCTTTCATATCCAGACTGAGCATCAGCAAGGACAATTCCAAGAGCCAAGTTTTCTTTAAAATGAACAGTCTGCAAGCTGATGACACAGCCATATATTACTGTGCCAGAAAAGACTACGCGAGAGGGGACTACTGGGGTCAAGGAACCTCAGTCACCGTCTCCTCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 8 GAGCATAAGATCACTGTTCTCTCTACAGTTACTGAGCACACAGGACCTCACCATGGGATGGAGCTGTATCATCCTCTTCTTGGTATCAACAGCTACAGGTGTCCACTCCCAGGTCCAACTGCAGCAGCCTGGGGCTGAGCTTGTGATGCCTGGGGCTTCAGTGAAGCTGTCCTGCAAGGCTTCTGGCTACACCTTCACCAGCTACTGGATGCACTGGGTGAAGCAGAGGCCTGGACAAGGCCTTGAGTGGATCGGAGAGATTGATCCTTCTGATAGTTATACTAACTACAATCAAAAGTTCAAGGGCAAGTCCACATTGACTGTAGACAAATCCTCCAGCACAGCCTACATGCAGCTCAGCAGCCTGACATCTGAGGACTCTGCGGTCTATTACTGTGCAAGATGGGGGATCTATGATGGTTACTACGGGGATGCTATGGACTACTGGGGTCAAGGAACCTCAGTCACCGTCTCCTCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 9
#> 10 AGTTCTCTCTACAGTTACTGAGCACACAGGACCTCACAATGGGATGGAGCTATATCATCCTCTTTTTGGTAGCAACAGCTACAGGTGTCCACTCCCAGGTCCAACTGCAGCAGCCTGGGGCTGAGCTGGTAAAGCCTGGGGCTTCAGTGAAGTTGTCCTGCAAGGCTTCTGGCTACACTTTCACCAGCTACTGGATGCACTGGGTGAAGCAGAGGCCTGGACAAGGCCTTGAGTGGATTGGAATGATTCATCCTAATAGTGGTAGTACTAACTACAATGAGAAGTTCAAGAGCAAGGCCACACTGACTGTAGACAAATCCTCCAGCACAGCCTACATGCAACTCAGCAGCCTGACATCTGAGGACTCTGCGGTCTATTACTGTGCAAGGACGTTTGCTTACTGGGGCCAAGGGACTCTGGTCACTGTCTCTGCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 11 AAAAACATGAGATCACAGTTCTCTCTACAGTTACTGAGCACACAGGACCTCACAATGGGATGGAGCTATATCATCCTCTTTTTGGTAGCAACAGCTACAGGTGTCCACTCCCAGGTCCAACTGCAGCAGCCTGGGGCTGAGCTGGTAAAGCCTGGGGCTTCAGTGAAGTTGTCCTGCAAGGCTTCTGGCTACACTTTCACCAGCTACTGGATGCACTGGGTGAAGCAGAGGCCTGGACAAGGCCTTGAGTGGATTGGAATGATTCATCCTAATAGTGGTAGTACTAACTACAATGAGAAGTTCAAGAGCAAGGCCACACTGACTGTAGACAAATCCTCCAGCACAGCCTACATGCAACTCAGCAGCCTGACATCTGAGGACTCTGCGGTCTATTACTGTGCCCGTATGGTTACGGGTGCTTACTGGGGCCAAGGGACTCTGGTCACTGTCTCTGCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 12
#> 13 TGGGGAGTGGGATCCCGTCCTGAGTTCCCCAATCTTCACATTCAGAAATCACCACTCAGTCCTGTCACTATGAAGTTGTGGTTAAACTGGGTTTTTCTTTTAACACTTTTACATGGTATCCAGTGTGAGGTGAAGCTGGTGGAATCTGGAGGAGGCTTGGTACAGTCTGGGCGTTCTCTGAGACTCTCCTGTGCAACTTCTGGGTTCACCTTCAGTGATTTCTACATGGAGTGGGTCCGCCAAGCTCCAGGGAAGGGACTGGAGTGGATTGCTGCAAGTAGAAACAAAGCTAATGATTATACAACAGAGTACAGTGCATCTGTGAAGGGTCGGTTCATCGTCTCCAGAGACACTTCCCAAAGCATCCTCTACCTTCAGATGAATGCCCTGAGAGCTGAGGACACTGCCATTTATTACTGTGCAAGAGTTAACCTGCATGCTATGGACTACTGGGGTCAAGGAACCTCAGTCACCGTCTCCTCAGCCAAAACAACAGCCCCATCGGTCTATCCACTGGCCCCTGTGTGTGGAGGTACAACTGGCTCCTCGGTGACTCTAGGATGCCTGGTCAAGGG
#> 14 GAGGCAGAGAACTTTAGCCCTGTCTTCTTTTTTAGTGTTCAGCACTGACAATATGACATTGAACATGCTGTTGGGGCTGAAGTGGGTTTTCTTTGTTGTTTTTTATCAAGGTGTGCATTGTGAGGTGCAGCTTGTTGAGTCTGGTGGAGGATTGGTGCAGCCTAAAGGGTCATTGAAACTCTCATGTGCAGCCTCTGGATTCAGCTTCAATACCTACGCCATGAACTGGGTCCGCCAGGCTCCAGGAAAGGGTTTGGAATGGGTTGCTCGCATAAGAAGTAAAAGTAATAATTATGCAACATATTATGCCGATTCAGTGAAAGACAGATTCACCATCTCCAGAGATGATTCAGAAAGCATGCTCTATCTGCAAATGAACAACTTGAAAACTGAGGACACAGCCATGTATTACTGTGTGAGAAGTTGGGACTACTGGGGCCAAGGCACCACTCTCACAGTCTCCTCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 15 GGGGACATATGAACACTGTTTTCTCTACAGTCACTGAATCTCAATGTCCTTACAATGAAATGCAGCTGGGTCATCTTCTTCCTGATGGCAGTGGTTATAGGGGTCAATTCAGAGGTTCAGCTGCAGCAGTCTGGGGCTGAGCTTGTGAGGCCAGGGGCCTCAGTCAAGTTGTCCTGCACAGCTTCTGGCTTTAACATTAAAGACGACTATATGCACTGGGTGAAGCAGAGGCCTGAACAGGGCCTGGAGTGGATTGGATGGATTGATCCTGAGAATGGTGATACTGAATATGCCTCGAAGTTCCAGGGCAAGGCCACTATAACAGCAGACACATCCTCCAACACAGCCTACCTGCAGCTCAGCAGCCTGACATCTGAGGACACTGCCGTCTATTACTGTACTTTCCGAATTTATTACTACGGTAGTAGCCCTTACTACTTTGACTACTGGGGCCAAGGCACCACTCTCACAGTCTCCTCAGGTAATGAAAAGGGACCTGACATGTTCCTCCTCTCAGAGTGCAAAGCCCCAGAGGAAAATGAAAAGATAAACCTGGGCTGTTTAGTAATTGGAAGTCAGCCACTGAAAATCAGCTGGGAGCCAAAGAAGTCAAGTATAGTTGAACATGTCTTCCCCTCTGAAATGAGAAATGGCAATTATACAATGGTCCTCCAGGTCACTGTGCTGGCCTC
#> 16 AAGCATAAGATCACTGTTCTCTCTACAGTTACTAAGCACACAGGATCTCACCATGGGATGGAGCTGTATCATCCTCATTTTGGTAGCAGCAGCTACAGGTGTCCACTCCCAGGTCCAACTGCAGCAGCCTGGGGCTGAGCTTGTGAAGCCTGGGGCTTCAGTGAAGATGTCCTGCAAGGCTTCTGGCTACACCTTCACCAGCTACTGGATAACCTGGGTGAAGCAGAGGCCTGGACAAGGCCTTGAGTGGATTGGAGATATTTATCCTGGTAGTGGTAGTACTAACTACAATGAGAAGTTCAAGAGCAAGGCCACACTGACTGTAGACACATCCTCCAGCACAGCCTACATGCAGCTCAGCAGCCTGACATCTGAGGACTCTGCGGTCTATTACTGTGCAAGAGAGGGTTACTACGGTAGTAGTCCCTATGCTATGGACTACTGGGGTCAAGGAACCTCAGTCACCGTCTCCTCAGGTAATGAAAAGGGACCTGACATGTTCCTCCTCTCAGAGTGCAAAGCCCCAGAGGAAAATGAAAAGATAAACCTGGGCTGTTTAGTAATTGGAAGTCAGCCACTGAAAATCAGCTGGGAGCCAAAGAAGTCAAGTATAGTTGAACATGTCTTCCCCTCTGAAATGAGAAATGGCAATTATACAATGGTCCTCCAGGTCACTGTGCTGGCCTC
#> 17 TGGGGAAGGGAGTGACCAGTTAGTCTTAAGGCACCACTGAGCCCAAGTCTTAGACATCATGGGTTGGCTGTGGAACTTGCTATTCCTGATGGCAGCTGCCCAAAGTGCCCAAGCACAGATCCAGTTGGTACAGTCTGGACCTGAGCTGAAGAAGCCTGGAGAGACAGTCAAGATCTCCTGCAAGGCTTCTGGGTATACCTTCACAACCTATGGAATGAGCTGGGTGAAACAGGCTCCAGGAAAGGGTTTAAAGTGGATGGGCTGGATAAACACCTACTCTGGAGTGCCAACATATGCTGATGACTTCAAGGGACGGTTTGCCTTCTCTTTGGAAACCTCTGCCAGCACTGCCTATTTGCAGATCAACAACCTCAAAAATGAGGACACGGCTACATATTTCTGTGCAAGAGAGGCTACGGTAGTAGCGGACTACTGGGGCCAAGGCACCACTCTCACAGTCTCCTCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 18 GGGACACTGACTCTAACCATGGAATGGATCTGGATCTTTCTCTTCATCCTGTCAGGAACTGCAGGTGTCCAATCCCAGGTTCAGCTGCAGCAGTCTGGAGCTGAGCTGGCGAGGCCTGGGGCTTCAGTGAAGCTGTCCTGCAAGGCTTCTGGCTACACCTTCACAAGCTATGGTATAAGCTGGGTGAAGCAGAGAACTGGACAGGGCCTTGAGTGGATTGGAGAGATTTATCCTAGAAGTGGTAATACTTACTACAATGAGAAGTTCAAGGGCAAGGCCACACTGACTGCAGACAAATCCTCCAGCACAGCGTACATGGAGCTCCGCAGCCTGACATCTGAGGACTCTGCGGTCTATTTCTGTGCAAGCGGAGGGGGTAACCCCTGGTACTTCGATGTCTGGGGCACAGGGACCACGGTCACCGTCTCCTCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> 19 GGGGAAGTGTGCAGCCATGGGCAGGCTTACTTCTTCATTCCTGTTACTGATTGTCCCTGCATATGTCCTGTCCCAGGTTACTCTGAAAGAGTCTGGCCCTGGGATATTGCAGCCCTCCCAGACCCTCAGTCTGACTTGTTCTTTCTCTGGGTTTTCACTGAGCACTTTTGGTATGGGTGTAGGCTGGATTCGTCAGCCTTCAGGGAAGGGTCTGGAGTGGCTGGCACACATTTGGTGGGATGATGATAAGTACTATAACCCAGCCCTGAAGAGTCGGCTCACAATCTCCAAGGATACCTCCAAAAACCAGGTATTCCTCAAGATCGCCAATGTGGACACTGCAGATACTGCCACATACTACTGTGCTCGACCCCCTCTAACTGGTTTTGCTTACTGGGGCCAAGGGACTCTGGTCACTGTCTCTGCAGAGAGTCAGTCCTTCCCAAATGTCTTCCCCCTCGTCTCCTGCGAGAGCCCCCTGTCTGATAAGAATCTGGTGGCCATGGGCTGCCTGGCCCGGGACTTCCTGCCCAGCACCATTTCCTTCACCTGGAACTACCAGAACAACACTGAAGTCATCCAGGGTATCAGAACCTTCCCAACACTGAGGACAGGGGGCAAGTACCTAGCCACCTCGCA
#> VJ_sequence_nt_raw
#> 1 ACTGATCAGTCTCCTCAGGCTGTCTCCTCAGGTTGCCTCCTCAAAATGAAGTTGCCTGTTAGGCTGTTGGTGCTGATGTTCTGGATTCCTGCTTCCAGCAGTGATGTTTTGATGACCCAAACTCCACTCTCCCTGCCTGTCAGTCTTGGAGATCAAGCCTCCATCTCTTGCAGATCTAGTCAGAGCATTGTACATAGTAATGGAAACACCTATTTAGAATGGTACCTGCAGAAACCAGGCCAGTCTCCAAAGCTCCTGATCTACAAAGTTTCCAACCGATTTTCTGGGGTCCCAGACAGGTTCAGTGGCAGTGGATCAGGGACAGATTTCACACTCAAGATCAGCAGAGTGGAGGCTGAGGATCTGGGAGTTTATTACTGCTTTCAAGGTTCACATGTTCCGTGGACGTTCGGTGGAGGCACCAAGCTGGAAATCAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 2
#> 3 GGGAGGAGACGTTGTAGAAATGAGACCGTCTATTCAGTTCCTGGGGCTCTTGTTGTTCTGGCTTCATGGTGCTCAGTGTGACATCCAGATGACACAGTCTCCATCCTCACTGTCTGCATCTCTGGGAGGCAAAGTCACCATCACTTGCAAGGCAAGCCAAGACATTAACAAGTATATAGCTTGGTACCAACACAAGCCTGGAAAAGGTCCTAGGCTGCTCATACATTACACATCTACATTACAGCCAGGCATCCCATCAAGGTTCAGTGGAAGTGGGTCTGGGAGAGATTATTCCTTCAGCATCAGCAACCTGGAGCCTGAAGATATTGCAACTTATTATTGTCTACAGTATGATAATCTTCTGTGGACGTTCGGTGGAGGCACCAAGCTGGAAATCAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 4 GACTTTTGACTCACCATATCAAGTTCGCAGAATGAGGTTCTCTGCTCAGCTTCTGGGGCTGCTTGTGCTCTGGATCCCTGGATCCACTGCAGATATTGTGATGACGCAGGCTGCATTCTCCAATCCAGTCACTCTTGGAACATCAGCTTCCATCTCCTGCAGGTCTAGTAAGAGTCTCCTACATAGTAATGGCATCACTTATTTGTATTGGTATCTGCAGAAGCCAGGCCAGTCTCCTCAGCTCCTGATTTATCAGATGTCCAACCTTGCCTCAGGAGTCCCAGACAGGTTCAGTAGCAGTGGGTCAGGAACTGATTTCACACTGAGAATCAGCAGAATGGAGGCTGAGGATGTGGGTGTTTATTACTGTGCTCAAAATCTAGAACTTCCGTGGACGTTCGGTGGAGGCACCAAGCTGGAAATCAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 5 TGGGGACTTTTGACTCACCATATCAAGTTCGCAGAATGAGGTTCTCTGCTCAGCTTCTGGGGCTGCTTGTGCTCTGGATCCCTGGATCCACTGCAGATATTGTGATGACGCAGGCTGCATTCTCCAATCCAGTCACTCTTGGAACATCAGCTTCCATCTCCTGCAGGTCTAGTAAGAGTCTCCTACATACTAATGGCATCACTTATTTGTATTGGTATCTGCAGAAGCCAGGCCAGTCTCCTCAGCTCCTGATTTATCAGATGTCCAACCTTGCCTCAGGAGTCCCAGACAGGTTCAGTAGCAGTGGGTCAGGAACTGATTTCACACTGAGAATCAGCAGAGTGGAGGCTGAGGATGTGGGTGTTTATTACTGTGCTCAAAATCTTGAACTTCCGTACACGTTCGGAGGGGGGACCAAGCTGGAAATAAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 6 TTCTATGGGGATGGTCCACACAAACTCAGGGAAAGTTTGAAGATGGTATCCACACCTCAGTTCCTTGTATTTTTGCTTTTCTGGATTCCAGCCTCCAGAGGTGACATCTTGCTGACTCAGTCTCCAGCCATCCTGTCTGTGAGTCCAGGAGAAAGAGTCAGTTTCTCCTGCAGGGCCAGTCAGAGCATTGGCACAAGCATACACTGGTATCAGCAAAGAACAAATGGTTCTCCAAGGCTTCTCATAAAGTATGCTTCTGAGTCTATCTCTGGGATCCCTTCCAGGTTTAGTGGCAGTGGATCAGGGACAGATTTTACTCTTAGCATCAACAGTGTGGAGTCTGAAGATATTGCAGATTATTACTGTCAACAAAGTAATAGCTGGCCGCTCACGTTCGGTGCTGGGACCAAGCTGGAGCTGAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC;TGGGGGACTGAGATGGAAAACAAAATGGATTTTCAGATGCAGATTATCAGCTTGCTGCTAATCAGTGTCACAGTCATAGTGTCTAATGGAGAAATTGTGCTCACCCAGTCTCCAACCACCATGGCTGCATCTCCCGGGGAGAAGATCACTATCACCTGCAGTGCCAGCTCAAGTATAAGTTCCAATTACTTGCATTGGTATCAGCAGAAGCCAGGATTCTCCCCTAAACTCTTGATTTATAGGACATCCAATCTGGCTTCTGGAGTCCCAGCTCGCTTCAGTGGCAGTGGGTCTGGGACCTCTTACTCTCTCACAATTGGCACCATGGAGGCTGAAGATGTTGCCACTTACTACTGCCAGCAGGGTAGTAGTATACCGCTCACGTTCGGTGCTGGGACCAAGCTGGAGCTGAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 7 TTCTATGGGGATGGTCCACACAAACTCAGGGAAAGTTTGAAGATGGTATCCACACCTCAGTTCCTTGTATTTTTGCTTTTCTGGATTCCAGCCTCCAGAGGTGACATCTTGCTGACTCAGTCTCCAGCCATCCTGTCTGTGAGTCCAGGAGAAAGAGTCAGTTTCTCCTGCAGGGCCAGTCAGAGCATTGGCACAAGCATACACTGGTATCAGCAAAGAACAAATGGTTCTCCAAGGCTTCTCATAAAGTATGCTTCTGAGTCTATCTCTGGGATCCCTTCCAGGTTTAGTGGCAGTGGATCAGGGACAGATTTTACTCTTAGCATCAACAGTGTGGAGTCTGAAGATATTGCAGATTATTACTGTCAACAAAGTAATAGCTGGCCGCTCACGTTCGGTGCTGGGACCAAGCTGGAGCTGAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC;TGGGGGACTGAGATGGAAAACAAAATGGATTTTCAGATGCAGATTATCAGCTTGCTGCTAATCAGTGTCACAGTCATAGTGTCTAATGGAGAAATTGTGCTCACCCAGTCTCCAACCACCATGGCTGCATCTCCCGGGGAGAAGATCACTATCACCTGCAGTGCCAGCTCAAGTATAAGTTCCAATTACTTGCATTGGTATCAGCAGAAGCCAGGATTCTCCCCTAAACTCTTGATTTATAGGACATCCAATCTGGCTTCTGGAGTCCCAGCTCGCTTCAGTGGCAGTGGGTCTGGGACCTCTTACTCTCTCACAATTGGCACCATGGAGGCTGAAGATGTTGCCACTTACTACTGCCAGCAGGGTAGTAGTATACCGCTCACGTTCGGTGCTGGGACCAAGCTGGAGCTGAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 8 GGGGACCAATATTGAAAAGAATAGACCTGGTTTGTGAATTATGGCCTGGATTTCACTTATACTCTCTCTCCTGGCTCTCAGCTCAGGGGCCATTTCCCAGGCTGTTGTGACTCAGGAATCTGCACTCACCACATCACCTGGTGAAACAGTCACACTCACTTGTCGCTCAAGTACTGGGGCTGTTACAACTAGTAACTATGCCAACTGGGTCCAAGAAAAACCAGATCATTTATTCACTGGTCTAATAGGTGGTACCAACAACCGAGCTCCAGGTGTTCCTGCCAGATTCTCAGGCTCCCTGATTGGAGACAAGGCTGCCCTCACCATCACAGGGGCACAGACTGAGGATGAGGCAATATATTTCTGTGCTCTATGGTACAGCAACCATTTGGTGTTCGGTGGAGGAACCAAACTGACTGTCCTAGGCCAGCCCAAGTCTTCGCCATCAGTCACCCTGTTTCCACCTTCCTCTGAAGAGCTCGAGACTAACAAGGCCACACTGGTGTGTA
#> 9 GGATTGTCATTGCAGCCAGGACTCAGCATGGACATGAGGACCCCTGCTCAGTTTCTTGGAATCTTGTTGCTCTGGTTTCCAGGTATCAAATGTGACATCAAGATGACCCAGTCTCCATCTTCCATGTATGCATCTCTAGGAGAGAGAGTCACTATCACTTGCAAGGCGAGTCAGGACATTAATAGCTATTTAAGCTGGTTCCAGCAGAAACCAGGGAAATCTCCTAAGACCCTGATCTATCGTGCAAACAGATTGGTAGATGGGGTCCCATCAAGGTTCAGTGGCAGTGGATCTGGGCAAGATTTTTCTCTCACCATCAGCAGCCTGGAGTATGAAGATATGGGAATTTATTATTGTCTACAGTATGATGAGTTTCCGTCCACGTTCGGAGGGGGGACCAACCTGGAAATAAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 10 TTATGGGGATTGTCATTGCAGTCAGGACTCAGCATGGACATGAGGGCTCCTGCACAGATTTTTGGCTTCTTGTTGCTCTTGTTTCCAGGTACCAGATGTGACATCCAGATGACCCAGTCTCCATCCTCCTTATCTGCCTCTCTGGGAGAAAGAGTCAGTCTCACTTGTCGGGCAAGTCAGGACATTGGTAGTAGCTTAAACTGGCTTCAGCAGGAACCAGATGGAACTATTAAACGCCTGATCTACGCCACATCCAGTTTAGATTCTGGTGTCCCCAAAAGGTTCAGTGGCAGTAGGTCTGGGTCAGATTATTCTCTCACCATCAGCAGCCTTGAGTCTGAAGATTTTGTAGACTATTACTGTCTACAATATGCTAGTTCTCCGTGGACGTTCGGTGGAGGCACCAAGCTGGAAATCAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 11 GGGGGATCTACATCTGAAAGGCAGGTGGAGCAAGATGGAATCACAGACTCAGGTCCTCATGTCCCTGCTGTTCTGGGTATCTGGTACCTGTGGGGACATTGTGATGACACAGTCTCCATCCTCCCTGACTGTGACAGCAGGAGAGAAGGTCACTATGAGCTGCAAGTCCAGTCAGAGTCTGTTAAACAGTGGAAATCAAAAGAACTACTTGACCTGGTACCAGCAGAAACCAGGGCAGCCTCCTAAACTGTTGATCTACTGGGCATCCACTAGGGAATCTGGGGTCCCTGATCGCTTCACAGGCAGTGGATCTGGAACAGATTTCACTCTCACCATCAGCAGTGTGCAGGCTGAAGACCTGGCAGTTTATTACTGTCAGAATGATTATAGTTATCCGCTCACGTTCGGTGCTGGGACCAAGCTGGAGCTGAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 12 GAGAACTACAACCTGTCTGTCTCAGCAGAGATCAGTAGTACCTGCATTATGGCCTGGACTCCTCTCTTCTTCTTCTTTGTTCTTCATTGCTCAGGTTCTTTCTCCCAACTTGTGCTCACTCAGTCATCTTCAGCCTCTTTCTCCCTGGGAGCCTCAGCAAAACTCACGTGCACCTTGAGTAGTCAGCACAGTACGTACACCATTGAATGGTATCAGCAACAGCCACTCAAGCCTCCTAAGTATGTGATGGAGCTTAAGAAAGATGGAAGCCACAGCACAGGTGATGGGATTCCTGATCGCTTCTCTGGATCCAGCTCTGGTGCTGATCGCTACCTTAGCATTTCCAACATCCAGCCTGAAGATGAAGCAATATACATCTGTGGTGTGGGTGATACAATTAAGGAACAATTTGTGTATGTTTTCGGCGGTGGAACCAAGGTCACTGTCCTAGGTCAGCCCAAGTCCACTCCCACTCTCACCGTGTTTCCACCTTCCTCTGAGGAGCTCAAGGAAAACAAAGCCACACTGGTGTGTCTGATTTCCAACTTTTCCCCGAGTGGTGTGACAGTGGCCTG
#> 13 GAGTCAGCCTCACACTGATCACACACAGACATGAGTGTGCCCACTCAGGTCCTGGGGTTGCTGCTGCTGTGGCTTACAGATGCCAGATGTGACATCCAGATGACTCAGTCTCCAGCCTCCCTATCTGTATCTGTGGGAGAAACTGTCACCATCACATGTCGAGCAAGTGAGAATATTTACAGTAATTTAGCATGGTATCAGCAGAAACAGGGAAAATCTCCTCAGCTCCTGGTCTATGCTGCAACAAACTTAGCAGATGGTGTGCCATCAAGGTTCAGTGGCAGTGGATCAGGCACACAGTATTCCCTCAAGATCAACAGCCTGCAGTCTGAAGATTTTGGGAGTTATTACTGTCAACATTTTTGGGGTACTCCTCGGACGTTCGGTGGAGGCACCAAGCTGGAAATCAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 14 GGGAAATACATCAGATCAGCATGGGCATCAAGATGGAGTCACAGACTCAGGTCTTTGTATACATGTTGCTGTGGTTGTCTGGTGTTGATGGAGACATTGTGATGACCCAGTCTCAAAAATTCATGTCCACATCAGTAGGAGACAGGGTCAGCGTCACCTGCAAGGCCAGTCAGAATGTGGGTACTAATGTAGCCTGGTATCAACAGAAACCAGGGCAATCTCCTAAAGCACTGATTTACTCGGCATCCTACCGGTACAGTGGAGTCCCTGATCGCTTCACAGGCAGTGGATCTGGGACAGATTTCACTCTCACCATCAGCAATGTGCAGTCTGAAGACTTGGCAGAGTATTTCTGTCAGCAATATAACAGCTATCCGCTCACGTTCGGTGCTGGGACCAAGCTGGAGCTGAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 15 GAAATGCATCACACCAGCATGGGCATCAAAATGGAGTCACAGATTCAGGTCTTTGTATTCGTGTTTCTCTGGTTGTCTGGTGTTGACGGAGACATTGTGATGACCCAGTCTCACAAATTCATGTCCACATCAGTAGGAGACAGGGTCAGCATCACCTGCAAGGCCAGTCAGGATGTGAGTACTGCTGTAGCCTGGTATCAACAGAAACCAGGACAATCTCCTAAACTACTGATTTACTCGGCATCCTACCGGTACACTGGAGTCCCTGATCGCTTCACTGGCAGTGGATCTGGGACGGATTTCACTTTCACCATCAGCAGTGTGCAGGCTGAAGACCTGGCAGTTTATTACTGTCAGCAACATTATAGTACTCCATTCACGTTCGGCTCGGGGACAAAGTTGGAAATAAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 16 GGGGAGTCATTCTTGGTCAGGAGACGTTGTAGAAATGAGACCGTCTATTCAGTTCCTGGGGCTCTTGTTGTTCTGGCTTCATGGTGCTCAGTGTGACATCCAGATGACACAGTCTCCATCCTCACTGTCTGCATCTCTGGGAGGCAAAGTCACCATCACTTGCAAGGCAAGCCAAGACATTAACAAGTATATAGCTTGGTACCAACACAAGCCTGGAAAAGGTCCTAGGCTGCTCATACATTACACATCTACATTACAGCCAGGCATCCCATCAAGGTTCAGTGGAAGTGGGTCTGGGAGAGATTATTCCTTCAGCATCAGCAACCTGGAGCCTGAAGATATTGCAACTTATTATTGTCTACAGTATGATAATCTATTCACGTTCGGCTCGGGGACAAAGTTGGAAATAAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 17 ATCCTCTCTTCCAGCTCTCAGAGATGGAGACAGACACACTCCTGCTATGGGTGCTGCTGCTCTGGGTTCCAGGTTCCACAGGTGACATTGTGCTGACCCAATCTCCAGCTTCTTTGGCTGTGTCTCTAGGGCAGAGGGCCACCATATCCTGCAGAGCCAGTGAAAGTGTTGATAGTTATGGCAATAGTTTTATGCACTGGTACCAGCAGAAACCAGGACAGCCACCCAAACTCCTCATCTATCGTGCATCCAACCTAGAATCTGGGATCCCTGCCAGGTTCAGTGGCAGTGGGTCTAGGACAGACTTCACCCTCACCATTAATCCTGTGGAGGCTGATGATGTTGCAACCTATTACTGTCAGCAAAGTAATGAGGATCCTCGGACGTTCGGTGGAGGCACCAAGCTGGAAATCAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 18 GAAATGCATCACACCAGCATGGGCATCAAAATGGAGTCACAGATTCAGGTCTTTGTATTCGTGTTTCTCTGGTTGTCTGGTGTTGACGGAGACATTGTGATGACCCAGTCTCACAAATTCATGTCCACATCAGTAGGAGACAGGGTCAGCATCACCTGCAAGGCCAGTCAGGATGTGAGTACTGCTGTAGCCTGGTATCAACAGAAACCAGGACAATCTCCTAAACTACTGATTTACTCGGCATCCTACCGGTACACTGGAGTCCCTGATCGCTTCACTGGCAGTGGATCTGGGACGGATTTCACTTTCACCATCAGCAGTGTGCAGGCTGAAGACCTGGCAGTTTATTACTGTCAGCAACATTATAGTACTCCGTACACGTTCGGAGGGGGGACCAAGCTGGAAATAAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> 19 ATTGGGGTCTGCATCAGAAAGGCAGGGGGATCAAGATGGAATCACAGACTCAGGTCTTCCTCTCCCTGCTGCTCTGGGTATCTGGTACCTGTGGGAACATTATGATGACACAGTCGCCATCATCTCTGGCTGTGTCTGCAGGAGAAAAGGTCACTATGAGCTGTAAGTCCAGTCAAAGTGTTTTATACAGTTCAAATCAGAAGAACTACTTGGCCTGGTACCAGCAGAAACCAGGGCAGTCTCCTAAACTGCTGATCTACTGGGCATCCACTAGGGAATCTGGTGTCCCTGATCGCTTCACAGGCAGTGGATCTGGGACAGATTTTACTCTTACCATCAGCAGTGTACAAGCTGAAGACCTGGCAGTTTATTACTGTCATCAATACCTCTCCTCGTGGACGTTCGGTGGAGGCACCAAGCTGGAAATCAAACGGGCTGATGCTGCACCAACTGTATCCATCTTCCCACCATCCAGTGAGCAGTTAACATCTGGAGGTGCCTCAGTCGTGTGCTTC
#> VDJ_sequence_nt_trimmed VJ_sequence_nt_trimmed VDJ_sequence_aa
#> 1 NA NA
#> 2 NA NA
#> 3 NA NA
#> 4 NA NA
#> 5 NA NA
#> 6 NA NA
#> 7 NA NA
#> 8 NA NA
#> 9 NA NA
#> 10 NA NA
#> 11 NA NA
#> 12 NA NA
#> 13 NA NA
#> 14 NA NA
#> 15 NA NA
#> 16 NA NA
#> 17 NA NA
#> 18 NA NA
#> 19 NA NA
#> VJ_sequence_aa VDJ_trimmed_ref VJ_trimmed_ref VDJ_raw_consensus_id
#> 1 NA
#> 2 NA clonotype2053_concat_ref_1
#> 3 NA clonotype2386_concat_ref_1
#> 4 NA
#> 5 NA clonotype2040_concat_ref_1
#> 6 NA clonotype516_concat_ref_2
#> 7 NA clonotype516_concat_ref_2
#> 8 NA clonotype141_concat_ref_1
#> 9 NA
#> 10 NA clonotype390_concat_ref_1
#> 11 NA clonotype464_concat_ref_1
#> 12 NA
#> 13 NA clonotype1725_concat_ref_1
#> 14 NA clonotype1243_concat_ref_1
#> 15 NA clonotype2271_concat_ref_1
#> 16 NA clonotype1028_concat_ref_1
#> 17 NA clonotype592_concat_ref_1
#> 18 NA clonotype649_concat_ref_1
#> 19 NA clonotype634_concat_ref_1
#> VJ_raw_consensus_id orig_barcode clonotype_frequency specifity
#> 1 clonotype7_concat_ref_1 TATGCCCCAGCTTCGG 25 NA
#> 2 CCCAGTTAGCAGGTCA 1 NA
#> 3 clonotype2386_concat_ref_2 CGTTGGGAGGGATCTG 1 NA
#> 4 clonotype441_concat_ref_1 CGAACATAGTGACATA 1 NA
#> 5 clonotype2040_concat_ref_2 ACGATGTTCAAACCGT 1 NA
#> 6 clonotype516_concat_ref_4 AGGTCATTCTTGGGTA 1 NA
#> 7 clonotype516_concat_ref_4 AGGTCATTCTTGGGTA 1 NA
#> 8 clonotype141_concat_ref_2 ATGCGATTCCCATTAT 2 NA
#> 9 clonotype743_concat_ref_1 ATGAGGGCAATGAATG 1 NA
#> 10 clonotype390_concat_ref_2 AGCGTATCACGGACAA 1 NA
#> 11 clonotype464_concat_ref_2 GTGCGGTAGCCCAGCT 1 NA
#> 12 clonotype10_concat_ref_1 TTCTTAGCATTAGGCT 6 NA
#> 13 clonotype1725_concat_ref_2 GCTGGGTGTCCAGTTA 1 NA
#> 14 clonotype1243_concat_ref_2 CTACGTCCAAAGGCGT 1 NA
#> 15 clonotype2271_concat_ref_2 GATCGATAGTTAGCGG 1 NA
#> 16 clonotype1028_concat_ref_2 TGGGCGTTCGGTTCGG 1 NA
#> 17 clonotype592_concat_ref_2 ATTATCCAGTTCGATC 1 NA
#> 18 clonotype649_concat_ref_2 CCTCTGACACCAGATT 1 NA
#> 19 clonotype634_concat_ref_2 CTACCCAAGACTAGAT 1 NA
#> affinity GEX_available orig.ident orig_barcode_GEX seurat_clusters
#> 1 NA FALSE <NA> <NA> <NA>
#> 2 NA FALSE <NA> <NA> <NA>
#> 3 NA FALSE <NA> <NA> <NA>
#> 4 NA FALSE <NA> <NA> <NA>
#> 5 NA FALSE <NA> <NA> <NA>
#> 6 NA TRUE SeuratProject AGGTCATTCTTGGGTA 0
#> 7 NA TRUE SeuratProject AGGTCATTCTTGGGTA 0
#> 8 NA TRUE SeuratProject ATGCGATTCCCATTAT 0
#> 9 NA FALSE <NA> <NA> <NA>
#> 10 NA FALSE <NA> <NA> <NA>
#> 11 NA TRUE SeuratProject GTGCGGTAGCCCAGCT 1
#> 12 NA FALSE <NA> <NA> <NA>
#> 13 NA FALSE <NA> <NA> <NA>
#> 14 NA FALSE <NA> <NA> <NA>
#> 15 NA TRUE SeuratProject GATCGATAGTTAGCGG 0
#> 16 NA TRUE SeuratProject TGGGCGTTCGGTTCGG 1
#> 17 NA TRUE SeuratProject ATTATCCAGTTCGATC 2
#> 18 NA TRUE SeuratProject CCTCTGACACCAGATT 4
#> 19 NA TRUE SeuratProject CTACCCAAGACTAGAT 2
#> PC_1 PC_2 UMAP_1 UMAP_2 tSNE_1 tSNE_2 batches
#> 1 NA NA NA NA NA NA Unspecified
#> 2 NA NA NA NA NA NA Unspecified
#> 3 NA NA NA NA NA NA Unspecified
#> 4 NA NA NA NA NA NA Unspecified
#> 5 NA NA NA NA NA NA Unspecified
#> 6 -0.9356794 -5.038539 -7.042369 -1.96977423 -16.495634 22.838189 Unspecified
#> 7 -0.9356794 -5.038539 -7.042369 -1.96977423 -16.495634 22.838189 Unspecified
#> 8 -2.4723771 -0.819026 -2.945280 -4.05283188 -13.722256 -1.487648 Unspecified
#> 9 NA NA NA NA NA NA Unspecified
#> 10 NA NA NA NA NA NA Unspecified
#> 11 -2.3438558 8.659659 12.260447 -1.46314500 -3.783243 -29.142588 Unspecified
#> 12 NA NA NA NA NA NA Unspecified
#> 13 NA NA NA NA NA NA Unspecified
#> 14 NA NA NA NA NA NA Unspecified
#> 15 -2.4256903 -4.098689 -3.537320 -2.80273508 -20.631126 6.718939 Unspecified
#> 16 -3.7693754 9.494090 11.363246 -2.93161844 -8.847022 -27.030247 Unspecified
#> 17 0.1115660 -2.332551 -6.830872 3.64487959 19.729280 10.202692 Unspecified
#> 18 -2.3275297 -3.097667 -5.545405 -0.09513162 -3.070754 20.088388 Unspecified
#> 19 -0.6573374 -6.195999 -6.550993 1.56593950 9.316681 11.732505 Unspecified
#> clonotype_id FB_assignment
#> 1 clonotype7 Dummy_barcode_1
#> 2 clonotype2053 Dummy_barcode_1
#> 3 clonotype2386 Dummy_barcode_1
#> 4 clonotype441 Dummy_barcode_1
#> 5 clonotype2040 Dummy_barcode_1
#> 6 clonotype516 Dummy_barcode_1
#> 7 clonotype516 Dummy_barcode_1
#> 8 clonotype141 Dummy_barcode_1
#> 9 clonotype743 Dummy_barcode_1
#> 10 clonotype390 Dummy_barcode_1
#> 11 clonotype464 Dummy_barcode_1
#> 12 clonotype10 Dummy_barcode_1
#> 13 clonotype1725 Dummy_barcode_1
#> 14 clonotype1243 Dummy_barcode_1
#> 15 clonotype2271 Dummy_barcode_1
#> 16 clonotype1028 Dummy_barcode_1
#> 17 clonotype592 Dummy_barcode_1
#> 18 clonotype649 Dummy_barcode_1
#> 19 clonotype634 Dummy_barcode_1
#> CDR3aa expanded_number X
#> 1 CFQGSHVPWTF NA 1
#> 2 CARSSLYYGNFYFDYW NA 2
#> 3 CTRNMRLRRGTGTGYAMDYWCLQYDNLLWTF NA 3
#> 4 CAQNLELPWTF NA 4
#> 5 CVRGGYDYDRDYFDFWCAQNLELPYTF NA 5
#> 6 CARNRITTVVAPMDYWCQQSNSWPLTF;CARNRITTVVAPMDYWCQQGSSIPLTF 2 6
#> 7 CARKDYARGDYWCQQSNSWPLTF;CARKDYARGDYWCQQGSSIPLTF 2 7
#> 8 CARWGIYDGYYGDAMDYWCALWYSNHLVF NA 8
#> 9 CLQYDEFPSTF NA 9
#> 10 CARTFAYWCLQYASSPWTF NA 10
#> 11 CARMVTGAYWCQNDYSYPLTF NA 11
#> 12 CGVGDTIKEQFVYVF NA 12
#> 13 CARVNLHAMDYWCQHFWGTPRTF NA 13
#> 14 CVRSWDYWCQQYNSYPLTF NA 14
#> 15 CTFRIYYYGSSPYYFDYWCQQHYSTPFTF NA 15
#> 16 CAREGYYGSSPYAMDYWCLQYDNLFTF NA 16
#> 17 CAREATVVADYWCQQSNEDPRTF NA 17
#> 18 CASGGGNPWYFDVWCQQHYSTPYTF NA 18
#> 19 CARPPLTGFAYWCHQYLSSWTF NA 19
#> [ reached 'max' / getOption("max.print") -- omitted 32 rows ]