Files in daattali/ddpcr
Analysis and Visualization of Droplet Digital PCR in R and on the Web

.Rbuildignore
.gitignore
.travis.yml
DESCRIPTION
LICENSE
Makefile
NAMESPACE
NEWS.md R/aaa.R R/concentration.R R/ddpcr.R R/empty.R R/failures.R R/ignoreme.R R/launch.R R/outliers.R R/pipe.R R/plate-attribs.R R/plate-extend.R R/plate-print.R R/plate-utils.R R/plate.R R/plot.R R/pnpp_experiment-calculate_neg_freq.R R/pnpp_experiment-classify.R R/pnpp_experiment-empty.R R/pnpp_experiment-failures.R R/pnpp_experiment-filled.R R/pnpp_experiment-plot.R R/pnpp_experiment-reclassify.R R/read.R R/sample_data.R R/save_load.R R/subset.R R/type-custom_thresholds.R R/type-ddpcr_plate.R R/type-fam_positive_pnpp.R R/type-hex_positive_pnpp.R R/type-pnpp_experiment.R R/type-wildtype_mutant_pnpp.R R/utils.R R/zzz.R README.md cran-comments.md
inst/sample_data/empty_plate.rds
inst/sample_data/large/large.rds
inst/sample_data/read_complex/diffname_C03_Amplitude.csv
inst/sample_data/read_complex/expected_data.csv
inst/sample_data/read_complex/metadata.csv
inst/sample_data/read_complex/test_A01_Amplitude.csv
inst/sample_data/read_complex/test_B02_Amplitude.csv
inst/sample_data/read_simple/expected_data.csv
inst/sample_data/read_simple/test.csv
inst/sample_data/read_simple/test_A01_Amplitude.csv
inst/sample_data/read_simple/test_B02_Amplitude.csv
inst/sample_data/read_v174/expected_data.csv
inst/sample_data/read_v174/test.csv
inst/sample_data/read_v174/test_A01_Amplitude.csv
inst/sample_data/read_v174/test_B02_Amplitude.csv
inst/sample_data/small/A05_filled.csv
inst/sample_data/small/analyzed.rds
inst/sample_data/small/analyzed_pnpp.rds
inst/sample_data/small/small.csv
inst/sample_data/small/small.rds
inst/sample_data/small/small_A01_Amplitude.csv
inst/sample_data/small/small_A05_Amplitude.csv
inst/sample_data/small/small_C01_Amplitude.csv
inst/sample_data/small/small_C05_Amplitude.csv
inst/sample_data/small/small_F05_Amplitude.csv
inst/shiny/server.R inst/shiny/server/helpers.R inst/shiny/server/tab-analyze.R inst/shiny/server/tab-dataset.R inst/shiny/server/tab-results.R inst/shiny/server/tab-settings.R inst/shiny/text/about.md inst/shiny/ui.R inst/shiny/ui/header.R inst/shiny/ui/helpers.R inst/shiny/ui/tab-about.R inst/shiny/ui/tab-analyze.R inst/shiny/ui/tab-dataset.R inst/shiny/ui/tab-results.R inst/shiny/ui/tab-settings.R
inst/shiny/www/ajax-loader-bar.gif
inst/shiny/www/ajax-loader.gif
inst/shiny/www/ddpcr.js
inst/shiny/www/fampositive.png
inst/shiny/www/favicon.ico
inst/shiny/www/hexpositive.png
inst/shiny/www/style.css
inst/vignette_files/overview_files/figure-markdown_strict/crosshairresults-1.png
inst/vignette_files/overview_files/figure-markdown_strict/plotcrosshair-1.png
inst/vignette_files/overview_files/figure-markdown_strict/plotparams-1.png
inst/vignette_files/overview_files/figure-markdown_strict/plotparams-2.png
inst/vignette_files/overview_files/figure-markdown_strict/plotraw-1.png
inst/vignette_files/overview_files/figure-markdown_strict/plotsimple-1.png
inst/vignette_files/overview_files/figure-markdown_strict/pnppplot-1.png
inst/vignette_files/overview_files/figure-markdown_strict/quickstart-1.png
inst/vignette_files/overview_files/figure-markdown_strict/quickstart-2.png
inst/vignettes-supp/algorithms-imgs.R
inst/vignettes-supp/ddpcr-example.png
inst/vignettes-supp/empty.png
inst/vignettes-supp/ex-subset.png
inst/vignettes-supp/gating.png
inst/vignettes-supp/outliers.png
inst/vignettes-supp/pnpp-simple-result.png
inst/vignettes-supp/supported-exp-types.png
inst/vignettes-supp/vignette_data_B06_Amplitude.csv
man/PNPP_EXPERIMENT.Rd man/WELL_ID_REGEX.Rd man/analysis_complete.Rd man/analyze.Rd man/bind_df_ends.Rd man/calc_negative_freq_simple.Rd man/calculate_concentration.Rd man/calculate_concentration_single.Rd man/calculate_neg_freq_single.Rd man/calculate_negative_freqs.Rd man/capitalize.Rd man/cat0.Rd man/check_step.Rd man/classify_droplets.Rd man/classify_droplets.pnpp_experiment.Rd man/classify_droplets_single.Rd man/classify_droplets_single.pnpp_experiment.Rd man/classify_thresholds.Rd man/cluster.Rd man/cluster_name.Rd man/clusters.Rd man/col_to_num.Rd man/custom_thresholds.Rd man/ddpcr.Rd man/ddpcr_plate.Rd man/define_clusters.Rd man/define_clusters.custom_thresholds.Rd man/define_clusters.ddpcr_plate.Rd man/define_clusters.pnpp_experiment.Rd man/define_params.Rd man/define_params.custom_thresholds.Rd man/define_params.ddpcr_plate.Rd man/define_params.fam_positive_pnpp.Rd man/define_params.hex_positive_pnpp.Rd man/define_params.pnpp_experiment.Rd man/define_params.wildtype_mutant_pnpp.Rd man/define_steps.Rd man/define_steps.custom_thresholds.Rd man/define_steps.ddpcr_plate.Rd man/define_steps.pnpp_experiment.Rd man/diff.point2d.Rd man/err_msg.Rd man/fam_positive_pnpp.Rd man/get_col.Rd man/get_empty_cutoff.Rd man/get_empty_cutoff.ddpcr_plate.Rd man/get_empty_cutoff.pnpp_experiment.Rd man/get_filled_border.Rd man/get_filled_drops.Rd man/get_outlier_cutoff.Rd man/get_outlier_cutoff.ddpcr_plate.Rd man/get_row.Rd man/get_single_well.Rd man/get_wells_btwn.Rd man/grapes-btwn-grapes.Rd man/grapes-greater-than-grapes.Rd man/has_signif_negative_cluster.Rd man/has_step.Rd man/hex_positive_pnpp.Rd man/is_dir.Rd man/is_dirty.Rd man/is_empty_plate.Rd man/is_file.Rd man/is_range.Rd man/is_well_success.Rd man/is_well_success.ddpcr_plate.Rd man/is_well_success.pnpp_experiment.Rd man/launch.Rd man/load_plate.Rd man/local_maxima.Rd man/local_minima.Rd man/lol_to_df.Rd man/mark_clusters.Rd man/merge_dfs_overwrite_col.Rd man/meta_var_name.Rd man/move_back.Rd man/move_front.Rd man/msg.Rd man/name.Rd man/named_vec_to_df.Rd man/new_plate.Rd man/next_step.Rd man/normalize_to_rds.Rd man/num_to_col.Rd man/num_to_row.Rd man/other_dim.Rd man/params.Rd man/parent_plate_type.Rd man/parent_plate_type.ddpcr_plate.Rd man/parent_plate_type.default.Rd man/parent_plate_type.fam_positive_pnpp.Rd man/parent_plate_type.hex_positive_pnpp.Rd man/parent_plate_type.wildtype_mutant_pnpp.Rd man/plate_data-set.Rd man/plate_data.Rd man/plate_meta-set.Rd man/plate_meta.Rd man/plate_types.Rd man/plot.custom_thresholds.Rd man/plot.ddpcr_plate.Rd man/plot.pnpp_experiment.Rd man/plot.wildtype_mutant_pnpp.Rd man/point2d.Rd man/positive_dim.Rd man/positive_dim_var.Rd man/positive_name.Rd man/print.ddpcr_plate.Rd man/quiet.Rd man/range_list_to_vec.Rd man/range_to_endpoints.Rd man/range_to_seq.Rd man/reclassify_droplets.Rd man/reclassify_droplets.pnpp_experiment.Rd man/reclassify_droplets_single.Rd man/reclassify_droplets_single.pnpp_experiment.Rd man/remove_empty.Rd man/remove_empty.ddpcr_plate.Rd man/remove_empty.pnpp_experiment.Rd man/remove_failures.Rd man/remove_failures.ddpcr_plate.Rd man/remove_outliers.Rd man/remove_outliers.ddpcr_plate.Rd man/reset.Rd man/row_to_num.Rd man/sample_data.Rd man/save_plate.Rd man/set_default_params.Rd man/status.Rd man/step.Rd man/step_begin.Rd man/step_end.Rd man/step_name.Rd man/steps.Rd man/subset.ddpcr_plate.Rd man/thresholds.Rd man/type.Rd man/unanalyzed_clusters.Rd man/variable_dim.Rd man/variable_dim_var.Rd man/warn_msg.Rd man/well_info.Rd man/wells_mutant.Rd man/wells_negative.Rd man/wells_positive.Rd man/wells_success.Rd man/wells_used.Rd man/wells_wildtype.Rd man/wildtype_mutant_pnpp.Rd man/x_threshold.Rd man/x_var.Rd man/y_threshold.Rd tests/testthat.R tests/testthat/test-custom_thresholds.R tests/testthat/test-empty.R tests/testthat/test-failures.R tests/testthat/test-merge_dfs_overwrite_col.R tests/testthat/test-outliers.R tests/testthat/test-plate-attribs.R tests/testthat/test-plate.R tests/testthat/test-pnpp_experiment-calculate_neg_freq.R tests/testthat/test-pnpp_experiment-filled.R tests/testthat/test-pnpp_experiment.R tests/testthat/test-read.R tests/testthat/test-save_load.R tests/testthat/test-subset.R tests/testthat/test-utils.R tests/testthat/test-v174.R vignettes/algorithm.Rmd vignettes/extend.Rmd vignettes/overview.Rmd
vignettes/overview_files/figure-markdown_strict/crosshairresults-1.png
vignettes/overview_files/figure-markdown_strict/plotcrosshair-1.png
vignettes/overview_files/figure-markdown_strict/plotparams-1.png
vignettes/overview_files/figure-markdown_strict/plotparams-2.png
vignettes/overview_files/figure-markdown_strict/plotraw-1.png
vignettes/overview_files/figure-markdown_strict/plotsimple-1.png
vignettes/overview_files/figure-markdown_strict/pnppplot-1.png
vignettes/overview_files/figure-markdown_strict/quickstart-1.png
vignettes/overview_files/figure-markdown_strict/quickstart-2.png
vignettes/technical_details.Rmd
daattali/ddpcr documentation built on June 25, 2017, 1:20 a.m.