Files in snystrom/dremeR

motif matching, comparison, and de novo discovery using the MEME Suite

LICENSE.md NEWS.md R/ame.R R/ame_methods.R R/class_utils.R R/data.R R/dreme.R R/fimo.R R/generics.R R/globals.R R/import_xml.R R/import_xml_utils.R R/input_methods.R R/match_utils.R R/meme.R R/memes-package.R R/motif_utils.R R/plots.R R/process_utils.R R/remove_duplicate_motifs.R R/sequence_heatmap.R R/streme.R R/tomtom.R R/utils.R R/utils_internal.R README.Rmd README.md data-raw/example_ame.R data-raw/example_ame_large.R data-raw/example_chip_summits.R data-raw/example_dreme.R data-raw/example_dreme_by_binding.R data-raw/example_dreme_tomtom.R data-raw/example_fimo.R data-raw/example_peaks.R data-raw/example_rnaseq_table.R data-raw/example_tomtom.R data-raw/flyFactorMotifs.R man/add_sequence.Rd man/ame_compare_heatmap_methods.Rd man/check_meme_install.Rd man/drop_best_match.Rd man/example_ame.Rd man/example_ame_large.Rd man/example_chip_summits.Rd man/example_dreme.Rd man/example_dreme_by_binding.Rd man/example_dreme_tomtom.Rd man/example_fimo.Rd man/example_peaks.Rd man/example_rnaseq.Rd man/example_tomtom.Rd man/force_best_match.Rd man/get_sequence.Rd man/has_duplicate_motifs.Rd man/importAme.Rd man/importDremeXML.Rd man/importFimo.Rd man/importMeme.Rd man/importStremeXML.Rd man/importTomTomXML.Rd man/meme_is_installed.Rd man/memes-package.Rd man/nest_tomtom.Rd man/plot_ame_heatmap.Rd man/plot_sequence_heatmap.Rd man/remove_duplicate_motifs.Rd man/runAme.Rd man/runDreme.Rd man/runFimo.Rd man/runMeme.Rd man/runStreme.Rd man/runTomTom.Rd man/update_best_match.Rd man/view_tomtom_hits.Rd man/write_fasta.Rd tests/testthat.R tests/testthat/test-ame.R tests/testthat/test-ame_methods.R tests/testthat/test-dreme.R tests/testthat/test-fimo.R tests/testthat/test-input_methods.R tests/testthat/test-match_utils.R tests/testthat/test-meme.R tests/testthat/test-motif_utils.R tests/testthat/test-process_error_check.R tests/testthat/test-remove_duplicate_motifs.R tests/testthat/test-sequence_heatmap.R tests/testthat/test-streme.R tests/testthat/test-tomtom.R tests/testthat/test-utils.R tests/testthat/test-xml_import.R vignettes/core_ame.Rmd vignettes/core_dreme.Rmd vignettes/core_fimo.Rmd vignettes/core_tomtom.Rmd vignettes/install_guide.Rmd vignettes/integrative_analysis.Rmd vignettes/tidy_motifs.Rmd