Files in immunarch

Multi-Modal Immune Repertoire Analytics for Immunotherapy and Vaccine Design in R

NEWS.md README.md R/RcppExports.R R/v0_clonality.R R/v1_public_airr.R R/immunarch-package.R R/import-standalone-purrr.R R/v0_spectratyping.R R/v0_io_utility.R R/v1_clonality_airr.R R/v0_preprocessing.R R/v0_diversity.R R/v0_kmers.R R/v0_tools.R R/v1_clonality_annotate.R R/aaa-registry.R R/v0_dynamics.R R/v1_package.R R/v0_io_savers.R R/v0_sampling.R R/v1_aaa_commons_vis.R R/v1_diversity_vis.R R/v0_data_docs.R R/v1_stats_vis.R R/v0_align_lineage.R R/v0_gene_usage_analysis.R R/v0_phylip.R R/v0_info_theory.R R/v0_seqCluster.R R/v0_vis.R R/v1_migration_utils.R R/v0_io_parsers.R R/v1_public_vis.R R/v0_overlap_analysis.R R/v1_migration_updates.R R/wip-v1-planning.R R/v1_stats_airr.R R/v0_dimensions.R R/v0_somatic_hypermutation.R R/v0_clustering.R R/v0_singlecell.R R/v1_aaa_registry_utils.R R/v0_io.R R/v0_gene_usage.R R/zzz.R R/v1_clonality_base.R R/globals.R R/v0_germline.R R/v0_explore.R R/v1_diversity_airr.R R/v0_annotation.R R/v0_shiny.R R/v0_filters.R R/v0_public.R R/v0_overlap.R R/v0_immunr_data_format.R R/v0_distance.R inst/doc/immunarch_threads.R inst/doc/immunarch.Rmd inst/doc/immunarch_threads.Rmd vignettes/immunarch.Rmd vignettes/immunarch_threads.Rmd vignettes/web_only_v0/load_10x.Rmd vignettes/web_only_v0/v6_diversity.Rmd vignettes/web_only_v0/v8_tracking.Rmd vignettes/web_only_v0/v21_singlecell.Rmd vignettes/web_only_v0/v5_gene_usage.Rmd vignettes/web_only_v0/data.Rmd vignettes/web_only_v0/clustering.Rmd vignettes/web_only_v0/repFilter_v3.Rmd vignettes/web_only_v0/v7_fixvis.Rmd vignettes/web_only_v0/load_mixcr.Rmd vignettes/web_only_v0/v10_prop.Rmd vignettes/web_only_v0/v9_kmers.Rmd vignettes/web_only_v0/v4_overlap.Rmd vignettes/web_only_v0/v11_db.Rmd vignettes/web_only_v0/BCRpipeline.Rmd vignettes/web_only_v0/v3_basic_analysis.Rmd vignettes/web_only_v0/introduction.Rmd man/vis_immunr_kmer_profile_main.Rd man/set_pb.Rd man/repClonality.Rd man/repAlignLineage.Rd man/vis_heatmap2.Rd man/repDiversity.Rd man/repOverlap.Rd man/seqDist.Rd man/vis.immunr_mds.Rd man/immunr_pca.Rd man/register_immunarch_method.Rd man/vis_box.Rd man/matrixdiagcopy.Rd man/select_barcodes.Rd man/aa_properties.Rd man/bcrdata.Rd man/immunr_hclust.Rd man/dot-quant_column_choice.Rd man/gene_stats.Rd man/vis.immunr_inc_overlap.Rd man/repSave.Rd man/entropy.Rd man/switch_type.Rd man/dbAnnotate.Rd man/select_clusters.Rd man/vis.immunr_chao1.Rd man/pubRepFilter.Rd man/vis.immunr_hclust.Rd man/seqCluster.Rd man/annotate_clonality.Rd man/apply_symm.Rd man/aa_table.Rd man/immunr_data_format.Rd man/vis.immunr_kmeans.Rd man/airr_diversity.Rd man/repSample.Rd man/vis_textlogo.Rd man/bunch_translate.Rd man/airr_stats.Rd man/group_from_metadata.Rd man/inc_overlap.Rd man/airr_public.Rd man/vis.immunr_clonal_prop.Rd man/vis_heatmap.Rd man/vis.clonal_family.Rd man/airr_clonality.Rd man/spectratype.Rd man/im_common_args.Rd man/repSomaticHypermutation.Rd man/vis_hist.Rd man/geneUsageAnalysis.Rd man/gene_segments.Rd man/getKmers.Rd man/vis.step_failure_ignored.Rd man/repExplore.Rd man/public_matrix.Rd man/vis.immunr_dynamics.Rd man/vis.Rd man/check_distribution.Rd man/top.Rd man/trackClonotypes.Rd man/repGermline.Rd man/vis_public_clonotypes.Rd man/vis.immunr_ov_matrix.Rd man/vis_circos.Rd man/repClonalFamily.Rd man/vis.clonal_family_tree.Rd man/pubRepApply.Rd man/repOverlapAnalysis.Rd man/geneUsage.Rd man/vis_public_frequencies.Rd man/vis.immunr_public_repertoire.Rd man/repFilter.Rd man/add_class.Rd man/immunarch_v1_updates.Rd man/coding.Rd man/pubRepStatistics.Rd man/has_class.Rd man/immdata.Rd man/pubRep.Rd man/repLoad.Rd man/vis.immunr_kmer_table.Rd man/vis.immunr_public_statistics.Rd man/dbLoad.Rd man/list_immunarch_news.Rd man/vis_bar.Rd man/vis.immunr_exp_vol.Rd man/split_to_kmers.Rd man/fixVis.Rd man/get_immunarch_news.Rd man/vis.immunr_gene_usage.Rd