Files in philliplab/MotifBinner

Bin reads by Motif

.gitignore

DESCRIPTION

NAMESPACE

R/align_sequences.R R/batch_utilities.R R/benchmarking.R R/bin_by_name.R R/classification_checker.R R/classify_mislabelling.R R/consensus_checker.R R/consensus_string.R R/datasets.R R/distances.R R/extract_motifs.R R/imports.R R/process_bin.R

R/reporting_utilities.R

R/sim_read.R README.md inst/MotifBinner.R inst/batch_and_reporting_system.Rmd

inst/build_consensus.sh

inst/build_mislabel.sh

inst/build_reports.R inst/consensus_investigation.Rmd

inst/consensus_investigation.html

inst/consensus_investigation.md

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inst/investigate_final_data.Rmd

inst/investigate_final_data.html

inst/investigate_final_data.md inst/investigate_unbinned_seqs.Rmd

inst/investigate_unbinned_seqs.html

inst/investigate_unbinned_seqs.md inst/mislabel_investigation.Rmd

inst/mislabel_investigation.html

inst/mislabel_investigation.md inst/quality_test.R inst/report_alt_dist_measure.Rmd

inst/report_alt_dist_measure.html

inst/report_alt_dist_measure.md inst/report_bin_file.Rmd

inst/report_bin_file.html

inst/report_bin_file.md inst/report_binned_seqs.Rmd

inst/report_binned_seqs.html

inst/report_binned_seqs.md inst/report_input_file.Rmd

inst/report_input_file.html

inst/report_input_file.md inst/report_motif_matches.Rmd

inst/report_motif_matches.html

inst/report_motif_matches.md inst/report_processed_seqs.Rmd

inst/report_processed_seqs.html

inst/report_processed_seqs.md inst/sample_script.R

inst/scenario_cache.rdata

man/add_snps.Rd man/align_sequences.Rd man/bin_by_name.Rd man/bin_file.Rd man/check_classification.Rd man/classify_absolute.Rd man/classify_bin.Rd man/classify_bin_infovar_balance.Rd man/classify_bin_most_frequent.Rd man/classify_bin_random.Rd man/clean_matches.Rd man/clean_seq_data.Rd man/compare_dists.Rd man/construct_consensus.Rd man/create_scenario_data.Rd man/dput_classified_binned_folder.Rd man/extract_motifs.Rd man/extract_motifs_iterative.Rd man/extract_motifs_par.Rd man/fast_stringDist.Rd man/file_to_consensus.Rd man/gen_and_contaminate_reads.Rd man/gen_error_profile.Rd man/gen_error_profile_uniform.Rd man/gen_pid_search_scenario.Rd man/gen_reads.Rd man/gen_seq.Rd man/get_mislabel_test_data.Rd man/get_test_settings.Rd man/list_unique_scenarios.Rd man/load_or_initialize_cache.Rd man/mostConsensusString.Rd man/muscle_par.Rd man/mutate_base.Rd man/process_bin.Rd man/process_file.Rd man/randomize_ambig.Rd man/randomize_list.Rd man/read_classified_binned_file.Rd man/read_sequence_file.Rd man/remove_motifs.Rd man/run_all_tests.Rd man/run_test.Rd man/save_bin_report.Rd man/save_bin_results.Rd man/score_all_classifications.Rd man/score_classification.Rd man/score_consensus.Rd man/twoStepConsensusString.Rd tests/testthat.R tests/testthat/test_absolute_classifier.R tests/testthat/test_alignment.R tests/testthat/test_classification_checker.R tests/testthat/test_consensus.R tests/testthat/test_extract_motifs.R tests/testthat/test_extract_motifs_par.R tests/testthat/test_infovar_bal_classifier.R tests/testthat/test_mostConsensusString.R tests/testthat/test_most_freq_classifier.R tests/testthat/test_name_binner.R tests/testthat/test_process_bin.R tests/testthat/test_random_classifier.R tests/testthat/test_score_consensus.R tests/testthat/test_sim_read.R tests/testthat/test_twostepconsensus.R

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vignettes/mislabel_detector.Rmd

vignettes/mislabel_detector.html

vignettes/mislabel_detector.md

philliplab/MotifBinner documentation built on Sept. 2, 2020, 11:41 a.m.