Files in Close-your-eyes/igsc
Immunoglobolin sequences from scRNAseq
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE.md
NAMESPACE
R/MultiplePairwiseAlignmentsToOneSubject.R
R/algnmt_plot.R
R/align_imgt_ref_to_TCR_seq.R
R/attach_imgt_allele.R
R/check_ref_seq_for_matches.R
R/cigar_to_position.R
R/collapse_duplicate_sequences.R
R/compare_seq_df_long.R
R/consecutive_disambiguate_seq.R
R/get_seqs_from_feature_df.R
R/global_align.R
R/imgt_tcr_segment_prep.R
R/pick_randomNames.R
R/printPairwiseAlignment.R
R/read_cellranger_outs.R
R/read_cellranger_outs2.R
R/read_fasta.R
R/sysdata.rda
R/vdjdb_hits.R
R/webscrape_ncbi.R
R/write_fasta.R
README.Rmd
README.md
_pkgdown.yml
data-raw/acp.R
docs/404.html
docs/LICENSE.html
docs/articles/index.html
docs/articles/prepare_tcr_seq_data.html
docs/articles/prepare_tcr_seq_data_files/figure-html/unnamed-chunk-13-1.png
docs/articles/prepare_tcr_seq_data_files/figure-html/unnamed-chunk-13-2.png
docs/articles/prepare_tcr_seq_data_files/figure-html/unnamed-chunk-14-1.png
docs/articles/prepare_tcr_seq_data_files/figure-html/unnamed-chunk-14-2.png
docs/articles/prepare_tcr_seq_data_files/figure-html/unnamed-chunk-15-1.png
docs/articles/prepare_tcr_seq_data_files/figure-html/unnamed-chunk-16-1.png
docs/articles/prepare_tcr_seq_data_files/figure-html/unnamed-chunk-16-2.png
docs/articles/prepare_tcr_seq_data_files/header-attrs-2.11/header-attrs.js
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
docs/index.html
docs/link.svg
docs/pkgdown.css
docs/pkgdown.js
docs/pkgdown.yml
docs/reference/MultiplePairwiseAlignmentsToOneSubject.html
docs/reference/MultipleSequenceAlignmentDECIPHER.html
docs/reference/Rplot001.png
docs/reference/align_imgt_ref_to_TCR_seq.html
docs/reference/attach_imgt_alleles.html
docs/reference/imgt_tcr_segment_prep.html
docs/reference/index.html
docs/reference/pick_randomNames.html
docs/reference/read_cellranger_outs.html
docs/reference/vdjdb_hits.html
igsc.Rproj
inst/extdata/IMGT_ref/human/hs.rds
inst/extdata/IMGT_ref/human/hs_TRAC.fasta
inst/extdata/IMGT_ref/human/hs_TRAJ.fasta
inst/extdata/IMGT_ref/human/hs_TRAV.fasta
inst/extdata/IMGT_ref/human/hs_TRAV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/human/hs_TRBC.fasta
inst/extdata/IMGT_ref/human/hs_TRBD.fasta
inst/extdata/IMGT_ref/human/hs_TRBJ.fasta
inst/extdata/IMGT_ref/human/hs_TRBV.fasta
inst/extdata/IMGT_ref/human/hs_TRBV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/human/hs_TRDC.fasta
inst/extdata/IMGT_ref/human/hs_TRDD.fasta
inst/extdata/IMGT_ref/human/hs_TRDJ.fasta
inst/extdata/IMGT_ref/human/hs_TRDV.fasta
inst/extdata/IMGT_ref/human/hs_TRDV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/human/hs_TRGC.fasta
inst/extdata/IMGT_ref/human/hs_TRGJ.fasta
inst/extdata/IMGT_ref/human/hs_TRGV.fasta
inst/extdata/IMGT_ref/human/hs_TRGV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/human/hs_TRV_leader_aa.fasta
inst/extdata/IMGT_ref/human/hs_TRV_leader_nt.fasta
inst/extdata/IMGT_ref/mouse/mm.rds
inst/extdata/IMGT_ref/mouse/mm_TRAC.fasta
inst/extdata/IMGT_ref/mouse/mm_TRAJ.fasta
inst/extdata/IMGT_ref/mouse/mm_TRAV.fasta
inst/extdata/IMGT_ref/mouse/mm_TRAV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/mouse/mm_TRBC.fasta
inst/extdata/IMGT_ref/mouse/mm_TRBJ.fasta
inst/extdata/IMGT_ref/mouse/mm_TRBV.fasta
inst/extdata/IMGT_ref/mouse/mm_TRBV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/mouse/mm_TRDC.fasta
inst/extdata/IMGT_ref/mouse/mm_TRDD.fasta
inst/extdata/IMGT_ref/mouse/mm_TRDJ.fasta
inst/extdata/IMGT_ref/mouse/mm_TRDV.fasta
inst/extdata/IMGT_ref/mouse/mm_TRDV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/mouse/mm_TRGC.fasta
inst/extdata/IMGT_ref/mouse/mm_TRGJ.fasta
inst/extdata/IMGT_ref/mouse/mm_TRGV.fasta
inst/extdata/IMGT_ref/mouse/mm_TRGV_CDRs_FRs.xlsx
inst/extdata/IMGT_ref/mouse/mm_TRV_leader_aa.fasta
inst/extdata/IMGT_ref/mouse/mm_TRV_leader_nt.fasta
inst/extdata/TCR_cassette_elements.fasta
inst/extdata/mcpas.csv.rds
inst/extdata/scheme_AA.xlsx
inst/extdata/scheme_NT.xlsx
inst/extdata/scheme_clustal.xlsx
inst/extdata/vdjdb.tsv.rds
man/MultiplePairwiseAlignmentsToOneSubject.Rd
man/algnmt_plot.Rd
man/align_imgt_ref_to_TCR_seq.Rd
man/attach_imgt_alleles.Rd
man/check_ref_seq_for_matches.Rd
man/cigar_to_position.Rd
man/collapse_duplicate_sequences.Rd
man/compare_seq_df_long.Rd
man/consecutive_distinct_seq.Rd
man/get_seqs_from_feature_df.Rd
man/global_align.Rd
man/imgt_tcr_segment_prep.Rd
man/pick_randomNames.Rd
man/printPairwiseAlignment.Rd
man/read_cellranger_outs.Rd
man/read_cellranger_outs2.Rd
man/read_fasta.Rd
man/vdjdb_hits.Rd
man/webscrape_ncbi.Rd
man/write_fasta.Rd
vignettes/.gitignore
vignettes/align_vdjdb_tcrs.Rmd
vignettes/clonotype_data.rds
vignettes/prepare_tcr_seq_data.Rmd
