Files in rnabioco/AVIDtools
A collection of single-cell V(D)J tools

.Rbuildignore
.github/.gitignore
.github/workflows/check-bioc.yaml
.github/workflows/check-standard.yaml
.github/workflows/pkgdown.yaml
.github/workflows/test-coverage.yaml
.gitignore
DESCRIPTION
LICENSE
LICENSE.md
NAMESPACE
NEWS.md R/calc-diversity.R R/calc-frequency.R R/calc-gene-usage.R R/calc-similarity.R R/cluster-seqs.R R/data.R R/djvdj-global.R R/djvdj-package.R R/filter-vdj.R R/import-vdj.R R/mutate-vdj.R R/plotting-labels.R R/plotting-utils.R R/plotting.R R/utils-tidy-eval.R R/utils.R README.Rmd README.md
codecov.yml
data-raw/splenocytes.R data-raw/tiny.R
data/splen_meta.rda
data/tiny_sce.rda
data/vdj_sce.rda
djvdj.Rproj
inst/extdata/splen/BL6_BCR/airr_rearrangement.tsv.gz
inst/extdata/splen/BL6_BCR/concat_ref.bam
inst/extdata/splen/BL6_BCR/filtered_contig_annotations.csv.gz
inst/extdata/splen/BL6_GEX/filtered_feature_bc_matrix/barcodes.tsv.gz
inst/extdata/splen/BL6_GEX/filtered_feature_bc_matrix/features.tsv.gz
inst/extdata/splen/BL6_GEX/filtered_feature_bc_matrix/matrix.mtx.gz
inst/extdata/splen/BL6_TCR/airr_rearrangement.tsv.gz
inst/extdata/splen/BL6_TCR/concat_ref.bam
inst/extdata/splen/BL6_TCR/filtered_contig_annotations.csv.gz
inst/extdata/splen/MD4_BCR/airr_rearrangement.tsv.gz
inst/extdata/splen/MD4_BCR/concat_ref.bam
inst/extdata/splen/MD4_BCR/filtered_contig_annotations.csv.gz
inst/extdata/splen/MD4_GEX/filtered_feature_bc_matrix/barcodes.tsv.gz
inst/extdata/splen/MD4_GEX/filtered_feature_bc_matrix/features.tsv.gz
inst/extdata/splen/MD4_GEX/filtered_feature_bc_matrix/matrix.mtx.gz
inst/extdata/splen/MD4_TCR/airr_rearrangement.tsv.gz
inst/extdata/splen/MD4_TCR/concat_ref.bam
inst/extdata/splen/MD4_TCR/filtered_contig_annotations.csv.gz
man/calc_diversity.Rd man/calc_frequency.Rd man/calc_gene_pairs.Rd man/calc_gene_usage.Rd man/calc_mds.Rd man/calc_similarity.Rd man/cluster_sequences.Rd man/define_clonotypes.Rd man/djvdj-package.Rd man/djvdj_theme.Rd man/fetch_vdj.Rd
man/figures/README-usage-1.png
man/figures/djvdj-logo-2.png
man/figures/djvdj-logo-dark-3.png
man/figures/djvdj-logo.png
man/figures/logo.png
man/filter_vdj.Rd man/import_vdj.Rd man/mutate_meta.Rd man/mutate_vdj.Rd man/plot_clone_frequency.Rd man/plot_diversity.Rd man/plot_frequency.Rd man/plot_gene_pairs.Rd man/plot_gene_usage.Rd man/plot_mds.Rd man/plot_motifs.Rd man/plot_numerical.Rd man/plot_rarefaction.Rd man/plot_scatter.Rd man/plot_similarity.Rd man/splen_meta.Rd man/summarize_vdj.Rd man/tidyeval.Rd man/tiny_sce.Rd man/vdj_sce.Rd
pkgdown/_pkgdown.yml
pkgdown/extra.css
pkgdown/favicon/apple-touch-icon-120x120.png
pkgdown/favicon/apple-touch-icon-152x152.png
pkgdown/favicon/apple-touch-icon-180x180.png
pkgdown/favicon/apple-touch-icon-60x60.png
pkgdown/favicon/apple-touch-icon-76x76.png
pkgdown/favicon/apple-touch-icon.png
pkgdown/favicon/favicon-16x16.png
pkgdown/favicon/favicon-32x32.png
pkgdown/favicon/favicon.ico
tests/testthat.R tests/testthat/test-calc-diversity.R tests/testthat/test-calc-frequency.R tests/testthat/test-calc-gene-usage.R tests/testthat/test-calc-similarity.R tests/testthat/test-cluster-seqs.R tests/testthat/test-filter-vdj.R tests/testthat/test-import-vdj.R tests/testthat/test-mutate-vdj.R tests/testthat/test-plots.R tests/testthat/test-utils.R vignettes/clustering.Rmd vignettes/diversity.Rmd vignettes/frequency.Rmd vignettes/gene-usage.Rmd vignettes/import.Rmd vignettes/mutate.Rmd vignettes/plotting.Rmd vignettes/similarity.Rmd
rnabioco/AVIDtools documentation built on Oct. 28, 2023, 10:23 a.m.