Files in ahopki14/tcrSeqR
Tools for analyzing data from Adaptive's ImmunoSeq platform

.gitignore
DESCRIPTION
NAMESPACE
R/biocload.R R/bleep.R R/clonality.R R/delta_stats.R R/example_ds.R R/exp_clone.R R/filter.DataFrame.R R/filter.tcr.R R/find_clones.R R/fisher.R R/iseqr_aggregate.R R/iseqr_exp_cl.R R/iseqr_make_tcr.R R/iseqr_merge.R R/iseqr_morisita.R R/iseqr_order.R R/iseqr_plot_factor.R R/iseqr_plot_metrics.R R/mean_misc.R R/morisita.R R/overlap.R R/richness.R R/shared.R R/simpson.R R/size.R R/ss2n.R R/stars.R R/synonimity.R R/tcr.R R/tert.R R/total.R README.md
data/ex_tsv.tar.gz
data/example_ds.rda
license.md man/bleep.Rd man/clonality.Rd man/delta_stats.Rd man/exp_clone.Rd man/filter.DataFrame.Rd man/filter.tcr.Rd man/fisher.Rd man/iseqr_aggregate.Rd man/iseqr_exp_cl.Rd man/iseqr_make_tcr.Rd man/iseqr_merge.Rd man/iseqr_morisita.Rd man/iseqr_order.Rd man/iseqr_plot_factor.Rd man/iseqr_plot_metrics.Rd man/mean_95.Rd man/mean_only.Rd man/mean_sd.Rd man/morisita.Rd man/overlap.Rd man/richness.Rd man/shared.Rd man/simpson.Rd man/size.Rd man/ss2n.Rd man/stars.Rd man/synonymity.Rd man/tcr-class.Rd man/tert.Rd man/total.Rd scripts/core/1_load_data.R scripts/core/2_expanded_clones.R scripts/core/3_aggregate.R scripts/core/4_calculate_metrics.R scripts/example.R scripts/old/10_find_public_clones.R scripts/old/4_plot_confounders.R scripts/old/5_graph_summary_stats.R scripts/old/5a_graph_summary_stats_ggplot.R scripts/old/6_rankplots.R scripts/old/7_plot_corr.R scripts/old/8_graph_delta_stats.R scripts/old/9_expanded_clone_analysis.R scripts/old/baseline_analysis.R scripts/old/baseline_expanded_clones.R scripts/old/baseline_plot_ranks.R scripts/old/exp_comparison2.R scripts/old/fisher_expanded.R scripts/old/mega_analysis.Rmd scripts/old/misc/add_to_dict.R scripts/old/misc/convert_ds_to_int.R scripts/old/misc/exp_comparison.R scripts/old/misc/fix_bad_columns.R scripts/old/misc/fix_dict.R scripts/old/misc/fix_new_primers.R scripts/old/misc/km_base.R scripts/old/misc/make_small_ds.R scripts/old/misc/make_sum.ds.R scripts/old/olScan.R scripts/old/old_summary_stats.R scripts/old/plot_exp_cl_comparison.R scripts/old/plot_ranks_layout.R scripts/old/plots.R scripts/old/process_data.R scripts/old/rmd/adjuvant.Rmd scripts/old/rmd/baseline.Rmd scripts/old/rmd/comparison.Rmd scripts/old/rmd/ipi.Rmd scripts/old/rmd/neoadjuvant.Rmd scripts/old/rmd/pd1.Rmd scripts/old/rmd/sbrt.Rmd scripts/old/sbrt/1_load_data.R scripts/old/sbrt/2_aggregate_data.R scripts/old/sbrt/3_calculate_summary_stats.R scripts/old/sbrt/4_plot_confounders.R scripts/old/sbrt/5_graph_summary_stats.R scripts/old/sbrt/6_rankplots.R scripts/old/sbrt/7_plot_corr.R scripts/old/sbrt/8_graph_delta_stats.R scripts/old/sbrt/9_expanded_clone_analysis.R scripts/old/sbrt/plot_stat_by_type.R
scripts/old/sbrt/plot_stat_by_type.R.save
scripts/old/sbrt/plot_stat_trend.R scripts/old/tumor_overlap.R shiny/tcrSeqR_shiny.R
ahopki14/tcrSeqR documentation built on June 15, 2018, 10:31 a.m.